/mnt/beegfs02/software/tools/modules/4.6.1/init/bash: line 37: /usr/bin/tclsh: No such file or directory 2025-12-03 10:43:17.742494: I tensorflow/core/util/port.cc:113] oneDNN custom operations are on. You may see slightly different numerical results due to floating-point round-off errors from different computation orders. To turn them off, set the environment variable `TF_ENABLE_ONEDNN_OPTS=0`. 2025-12-03 10:43:18.900872: I tensorflow/core/platform/cpu_feature_guard.cc:210] This TensorFlow binary is optimized to use available CPU instructions in performance-critical operations. To enable the following instructions: AVX2 AVX512F AVX512_VNNI FMA, in other operations, rebuild TensorFlow with the appropriate compiler flags. 2025-12-03 10:43:21.224939: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Could not find TensorRT I1203 10:43:25.485005 22626560820352 run_deepvariant.py:627] Re-using the directory for intermediate results in /tmp/tmp8ho9n4o4 ***** Intermediate results will be written to /tmp/tmp8ho9n4o4 in docker. **** I1203 10:43:25.486015 22626560820352 run_deepvariant.py:857] env = {'SHELL': '/bin/bash', 'NV_LIBCUBLAS_VERSION': '12.3.4.1-1', 'NVIDIA_VISIBLE_DEVICES': 'all', 'NV_NVML_DEV_VERSION': '12.3.101-1', 'NV_CUDNN_PACKAGE_NAME': 'libcudnn9-cuda-12', 'SLURM_JOB_USER': 't_steimle', 'SLURM_TASKS_PER_NODE': '1', 'SLURM_JOB_UID': '800712344', 'HISTCONTROL': 'ignoredups', 'TERM_PROGRAM_VERSION': '3.2a', 'SLURM_TASK_PID': '2654628', 'NV_LIBNCCL_DEV_PACKAGE': 'libnccl-dev=2.20.3-1+cuda12.3', 'NV_LIBNCCL_DEV_PACKAGE_VERSION': 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'NV_LIBCUSPARSE_DEV_VERSION': '12.2.0.103-1', 'RUSTUP_HOME': '/home/t_steimle/.rustup', 'LESSOPEN': '||/usr/bin/lesspipe.sh %s', 'USER': 't_steimle', 'CARGO_PKG_VERSION': '0.1.0', 'TMUX_PANE': '%28', 'LIBRARY_PATH': '/usr/local/cuda/lib64/stubs', 'SLURM_NODELIST': 'gpu03', 'NV_CUDNN_VERSION': '9.0.0.312', 'ENVIRONMENT': 'BATCH', 'GPU_DEVICE_ORDINAL': '0', 'LOADEDMODULES': 'singularity-ce/4.2.2', 'SLURM_JOB_ACCOUNT': 'igr_hpc', 'CARGO_PKG_RUST_VERSION': '', 'SLURM_PRIO_PROCESS': '0', 'CARGO_PKG_NAME': 'pandora_lib_promethion', 'SHLVL': '4', 'SLURM_NNODES': '1', 'BASH_ENV': '/mnt/beegfs02/software/tools/modules/4.6.1/init/bash', 'NV_CUDA_LIB_VERSION': '12.3.2-1', 'NVARCH': 'x86_64', 'CARGO_PKG_AUTHORS': '', 'SINGULARITY_BIND': '/mnt:/mnt,/home/t_steimle:/home/t_steimle,/mnt/beegfs02/scratch/t_steimle/data/wgs/34528/norm/DeepVariant/part4:/output', 'NV_CUDNN_PACKAGE_DEV': 'libcudnn9-dev-cuda-12=9.0.0.312-1', 'XDG_SESSION_ID': '576', 'CARGO_PKG_VERSION_PRE': '', 'SLURM_SUBMIT_HOST': 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${which_declare} ) | /usr/bin/which --tty-only --read-alias --read-functions --show-tilde --show-dot $@\n}', 'BASH_FUNC_module%%': '() { _module_raw "$@" 2>&1\n}', 'BASH_FUNC__module_raw%%': '() { unset _mlshdbg;\n if [ "${MODULES_SILENT_SHELL_DEBUG:-0}" = \'1\' ]; then\n case "$-" in \n *v*x*)\n set +vx;\n _mlshdbg=\'vx\'\n ;;\n *v*)\n set +v;\n _mlshdbg=\'v\'\n ;;\n *x*)\n set +x;\n _mlshdbg=\'x\'\n ;;\n *)\n _mlshdbg=\'\'\n ;;\n esac;\n fi;\n unset _mlre _mlIFS;\n if [ -n "${IFS+x}" ]; then\n _mlIFS=$IFS;\n fi;\n IFS=\' \';\n for _mlv in ${MODULES_RUN_QUARANTINE:-};\n do\n if [ "${_mlv}" = "${_mlv##*[!A-Za-z0-9_]}" -a "${_mlv}" = "${_mlv#[0-9]}" ]; then\n if [ -n "`eval \'echo ${\'$_mlv\'+x}\'`" ]; then\n _mlre="${_mlre:-}${_mlv}_modquar=\'`eval \'echo ${\'$_mlv\'}\'`\' ";\n fi;\n _mlrv="MODULES_RUNENV_${_mlv}";\n _mlre="${_mlre:-}${_mlv}=\'`eval \'echo ${\'$_mlrv\':-}\'`\' ";\n fi;\n done;\n if [ -n "${_mlre:-}" ]; then\n eval `eval ${_mlre} /usr/bin/tclsh /mnt/beegfs02/software/tools/modules/4.6.1/libexec/modulecmd.tcl bash \'"$@"\'`;\n else\n eval `/usr/bin/tclsh /mnt/beegfs02/software/tools/modules/4.6.1/libexec/modulecmd.tcl bash "$@"`;\n fi;\n _mlstatus=$?;\n if [ -n "${_mlIFS+x}" ]; then\n IFS=$_mlIFS;\n else\n unset IFS;\n fi;\n unset _mlre _mlv _mlrv _mlIFS;\n if [ -n "${_mlshdbg:-}" ]; then\n set -$_mlshdbg;\n fi;\n unset _mlshdbg;\n return $_mlstatus\n}', '_': '/usr/bin/python3', 'LC_CTYPE': 'C.UTF-8', 'TF2_BEHAVIOR': '1', 'TPU_ML_PLATFORM': 'Tensorflow', 'TF_CPP_MIN_LOG_LEVEL': '1'} ***** Running the command:***** time seq 0 19 | parallel -q --halt 2 --line-buffer /opt/deepvariant/bin/make_examples --mode calling --ref "/home/t_steimle/ref/hs1/chm13v2.0.fa" --reads "/mnt/beegfs02/scratch/t_steimle/data/wgs/34528/norm/34528_norm_hs1.bam" --examples "/tmp/tmp8ho9n4o4/make_examples.tfrecord@20.gz" --checkpoint "/opt/models/ont_r104" --par_regions_bed "/home/t_steimle/ref/hs1/chm13v2.0_PAR.bed" --regions "chr6:66983782-172126628,chr7:1-160567428,chr8:1-146259331,chr9:1-150617247,chrM:1-16569,chrX:1-154259566,chrY:1-62460029" --sample_name "34528_norm" --task {} /mnt/beegfs02/software/tools/modules/4.6.1/init/bash: line 37: /usr/bin/tclsh: No such file or directory perl: warning: Setting locale failed. perl: warning: Please check that your locale settings: LANGUAGE = (unset), LC_ALL = (unset), LC_CTYPE = "C.UTF-8", LANG = "en_US.UTF-8" are supported and installed on your system. perl: warning: Falling back to the standard locale ("C"). /mnt/beegfs02/software/tools/modules/4.6.1/init/bash: line 37: /usr/bin/tclsh: No such file or directory /mnt/beegfs02/software/tools/modules/4.6.1/init/bash: line 37: /usr/bin/tclsh: No such file or directory /mnt/beegfs02/software/tools/modules/4.6.1/init/bash: line 37: /usr/bin/tclsh: No such file or directory /mnt/beegfs02/software/tools/modules/4.6.1/init/bash: line 37: /usr/bin/tclsh: No such file or directory 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line 37: /usr/bin/tclsh: No such file or directory /mnt/beegfs02/software/tools/modules/4.6.1/init/bash: line 37: /usr/bin/tclsh: No such file or directory /mnt/beegfs02/software/tools/modules/4.6.1/init/bash: line 37: /usr/bin/tclsh: No such file or directory /mnt/beegfs02/software/tools/modules/4.6.1/init/bash: line 37: /usr/bin/tclsh: No such file or directory /mnt/beegfs02/software/tools/modules/4.6.1/init/bash: line 37: /usr/bin/tclsh: No such file or directory /mnt/beegfs02/software/tools/modules/4.6.1/init/bash: line 37: /usr/bin/tclsh: No such file or directory /mnt/beegfs02/software/tools/modules/4.6.1/init/bash: line 37: /usr/bin/tclsh: No such file or directory /mnt/beegfs02/software/tools/modules/4.6.1/init/bash: line 37: /usr/bin/tclsh: No such file or directory 2025-12-03 10:43:43.121928: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Could not find TensorRT 2025-12-03 10:43:43.110634: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Could not find TensorRT 2025-12-03 10:43:43.174988: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Could not find TensorRT 2025-12-03 10:43:43.120605: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Could not find TensorRT 2025-12-03 10:43:42.677015: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Could not find TensorRT 2025-12-03 10:43:43.118354: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Could not find TensorRT 2025-12-03 10:43:43.113713: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Could not find TensorRT 2025-12-03 10:43:43.130704: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Could not find TensorRT 2025-12-03 10:43:43.178499: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Could not find TensorRT 2025-12-03 10:43:42.677019: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Could not find TensorRT 2025-12-03 10:43:43.178499: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Could not find TensorRT 2025-12-03 10:43:43.176534: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Could not find TensorRT 2025-12-03 10:43:43.124262: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Could not find TensorRT 2025-12-03 10:43:43.113426: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Could not find TensorRT 2025-12-03 10:43:43.125068: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Could not find TensorRT 2025-12-03 10:43:43.128616: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Could not find TensorRT 2025-12-03 10:43:43.175012: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Could not find TensorRT 2025-12-03 10:43:43.124476: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Could not find TensorRT 2025-12-03 10:43:43.111055: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Could not find TensorRT 2025-12-03 10:43:43.175012: W tensorflow/compiler/tf2tensorrt/utils/py_utils.cc:38] TF-TRT Warning: Could not find TensorRT /tmp/Bazel.runfiles_fj5qftqh/runfiles/absl_py/absl/flags/_validators.py:233: UserWarning: Flag --mode has a non-None default value; therefore, mark_flag_as_required will pass even if flag is not specified in the command line! mark_flag_as_required(flag_name, flag_values) /tmp/Bazel.runfiles_yfrwrgv_/runfiles/absl_py/absl/flags/_validators.py:233: UserWarning: Flag --mode has a non-None default value; therefore, mark_flag_as_required will pass even if flag is not specified in the command line! mark_flag_as_required(flag_name, flag_values) /tmp/Bazel.runfiles_dt5j_20v/runfiles/absl_py/absl/flags/_validators.py:233: UserWarning: Flag --mode has a non-None default value; therefore, mark_flag_as_required will pass even if flag is not specified in the command line! mark_flag_as_required(flag_name, flag_values) /tmp/Bazel.runfiles_i_pvejr9/runfiles/absl_py/absl/flags/_validators.py:233: UserWarning: Flag --mode has a non-None default value; therefore, mark_flag_as_required will pass even if flag is not specified in the command line! mark_flag_as_required(flag_name, flag_values) /tmp/Bazel.runfiles_hr446dh3/runfiles/absl_py/absl/flags/_validators.py:233: UserWarning: Flag --mode has a non-None default value; therefore, mark_flag_as_required will pass even if flag is not specified in the command line! mark_flag_as_required(flag_name, flag_values) /tmp/Bazel.runfiles_85ow0nks/runfiles/absl_py/absl/flags/_validators.py:233: UserWarning: Flag --mode has a non-None default value; therefore, mark_flag_as_required will pass even if flag is not specified in the command line! mark_flag_as_required(flag_name, flag_values) /tmp/Bazel.runfiles__gdy2k6x/runfiles/absl_py/absl/flags/_validators.py:233: UserWarning: Flag --mode has a non-None default value; therefore, mark_flag_as_required will pass even if flag is not specified in the command line! mark_flag_as_required(flag_name, flag_values) /tmp/Bazel.runfiles__f00eson/runfiles/absl_py/absl/flags/_validators.py:233: UserWarning: Flag --mode has a non-None default value; therefore, mark_flag_as_required will pass even if flag is not specified in the command line! mark_flag_as_required(flag_name, flag_values) /tmp/Bazel.runfiles_n1zn00v5/runfiles/absl_py/absl/flags/_validators.py:233: UserWarning: Flag --mode has a non-None default value; therefore, mark_flag_as_required will pass even if flag is not specified in the command line! mark_flag_as_required(flag_name, flag_values) /tmp/Bazel.runfiles_2rdjofrk/runfiles/absl_py/absl/flags/_validators.py:233: UserWarning: Flag --mode has a non-None default value; therefore, mark_flag_as_required will pass even if flag is not specified in the command line! mark_flag_as_required(flag_name, flag_values) /tmp/Bazel.runfiles_2pl5uz35/runfiles/absl_py/absl/flags/_validators.py:233: UserWarning: Flag --mode has a non-None default value; therefore, mark_flag_as_required will pass even if flag is not specified in the command line! mark_flag_as_required(flag_name, flag_values) /tmp/Bazel.runfiles_fcy4cxbj/runfiles/absl_py/absl/flags/_validators.py:233: UserWarning: Flag --mode has a non-None default value; therefore, mark_flag_as_required will pass even if flag is not specified in the command line! mark_flag_as_required(flag_name, flag_values) /tmp/Bazel.runfiles_1c4tr8s7/runfiles/absl_py/absl/flags/_validators.py:233: UserWarning: Flag --mode has a non-None default value; therefore, mark_flag_as_required will pass even if flag is not specified in the command line! mark_flag_as_required(flag_name, flag_values) /tmp/Bazel.runfiles_d59fqul3/runfiles/absl_py/absl/flags/_validators.py:233: UserWarning: Flag --mode has a non-None default value; therefore, mark_flag_as_required will pass even if flag is not specified in the command line! mark_flag_as_required(flag_name, flag_values) /tmp/Bazel.runfiles_2234hl18/runfiles/absl_py/absl/flags/_validators.py:233: UserWarning: Flag --mode has a non-None default value; therefore, mark_flag_as_required will pass even if flag is not specified in the command line! mark_flag_as_required(flag_name, flag_values) /tmp/Bazel.runfiles_q5mw2231/runfiles/absl_py/absl/flags/_validators.py:233: UserWarning: Flag --mode has a non-None default value; therefore, mark_flag_as_required will pass even if flag is not specified in the command line! mark_flag_as_required(flag_name, flag_values) /tmp/Bazel.runfiles_256ycuvl/runfiles/absl_py/absl/flags/_validators.py:233: UserWarning: Flag --mode has a non-None default value; therefore, mark_flag_as_required will pass even if flag is not specified in the command line! mark_flag_as_required(flag_name, flag_values) /tmp/Bazel.runfiles_u0p2kt61/runfiles/absl_py/absl/flags/_validators.py:233: UserWarning: Flag --mode has a non-None default value; therefore, mark_flag_as_required will pass even if flag is not specified in the command line! mark_flag_as_required(flag_name, flag_values) /tmp/Bazel.runfiles_5vbd34z3/runfiles/absl_py/absl/flags/_validators.py:233: UserWarning: Flag --mode has a non-None default value; therefore, mark_flag_as_required will pass even if flag is not specified in the command line! mark_flag_as_required(flag_name, flag_values) /tmp/Bazel.runfiles_8bebu17u/runfiles/absl_py/absl/flags/_validators.py:233: UserWarning: Flag --mode has a non-None default value; therefore, mark_flag_as_required will pass even if flag is not specified in the command line! mark_flag_as_required(flag_name, flag_values) 2025-12-03 10:43:45.840726: E external/local_xla/xla/stream_executor/cuda/cuda_driver.cc:282] failed call to cuInit: CUDA_ERROR_NO_DEVICE: no CUDA-capable device is detected I1203 10:43:45.841402 22389068997760 make_examples_core.py:3773] model.example_info filename: /opt/models/ont_r104/model.example_info.json I1203 10:43:45.841866 22389068997760 make_examples_core.py:3777] Reading flags_for_calling from /opt/models/ont_r104/model.example_info.json I1203 10:43:45.842453 22389068997760 make_examples_core.py:3794] Flags for calling: alt_aligned_pileup: rows call_small_model_examples: True max_reads_per_partition: 600 min_mapping_quality: 1 parse_sam_aux_fields: True partition_size: 25000 phase_reads: True pileup_image_height: 100 pileup_image_width: 99 realign_reads: False small_model_indel_gq_threshold: 17 small_model_snp_gq_threshold: 9 small_model_vaf_context_window_size: 51 sort_by_haplotypes: True track_ref_reads: True trained_small_model_path: /opt/smallmodels/ont_r104 trim_reads_for_pileup: True vsc_min_fraction_indels: 0.1 vsc_min_fraction_snps: 0.1 min_base_quality: 1 I1203 10:43:45.845484 22389068997760 dv_utils.py:333] From /opt/models/ont_r104/model.example_info.json: Shape of input examples: [300, 99, 8], Channels of input examples: [1, 2, 3, 4, 5, 6, 7, 25]. W1203 10:43:45.845834 22389068997760 make_examples_options.py:1187] --parse_sam_aux_fields is deprecated. HP is parsed if --phase_reads=False and --sort_by_haplotypes, --reverse_haplotypes, or --hp_tag_for_assembly_polishing are set. HP is parsed if --phase_reads=False and the 'haplotype' channel is requested. HP is parsed if --output_phasing_error_stats is set. OQ is parsed if --use_original_quality_scores is set. MM, ML, MN are parsed if the "base_methylation" channel is requested or if --enable_methylation_calling or if --enable_methylation_aware_phasing is set. I1203 10:43:45.845941 22389068997760 make_examples_options.py:1204] Parsing AUX Fields: [] I1203 10:43:45.851413 22389068997760 make_examples_core.py:367] Task 14/20: Preparing inputs 2025-12-03 10:43:45.842226: E external/local_xla/xla/stream_executor/cuda/cuda_driver.cc:282] failed call to cuInit: CUDA_ERROR_NO_DEVICE: no CUDA-capable device is detected I1203 10:43:45.843008 23202326590592 make_examples_core.py:3773] model.example_info filename: /opt/models/ont_r104/model.example_info.json I1203 10:43:45.843550 23202326590592 make_examples_core.py:3777] Reading flags_for_calling from /opt/models/ont_r104/model.example_info.json I1203 10:43:45.844259 23202326590592 make_examples_core.py:3794] Flags for calling: alt_aligned_pileup: rows call_small_model_examples: True max_reads_per_partition: 600 min_mapping_quality: 1 parse_sam_aux_fields: True partition_size: 25000 phase_reads: True pileup_image_height: 100 pileup_image_width: 99 realign_reads: False small_model_indel_gq_threshold: 17 small_model_snp_gq_threshold: 9 small_model_vaf_context_window_size: 51 sort_by_haplotypes: True track_ref_reads: True trained_small_model_path: /opt/smallmodels/ont_r104 trim_reads_for_pileup: True vsc_min_fraction_indels: 0.1 vsc_min_fraction_snps: 0.1 min_base_quality: 1 I1203 10:43:45.847680 23202326590592 dv_utils.py:333] From /opt/models/ont_r104/model.example_info.json: Shape of input examples: [300, 99, 8], Channels of input examples: [1, 2, 3, 4, 5, 6, 7, 25]. W1203 10:43:45.848242 23202326590592 make_examples_options.py:1187] --parse_sam_aux_fields is deprecated. HP is parsed if --phase_reads=False and --sort_by_haplotypes, --reverse_haplotypes, or --hp_tag_for_assembly_polishing are set. HP is parsed if --phase_reads=False and the 'haplotype' channel is requested. HP is parsed if --output_phasing_error_stats is set. OQ is parsed if --use_original_quality_scores is set. MM, ML, MN are parsed if the "base_methylation" channel is requested or if --enable_methylation_calling or if --enable_methylation_aware_phasing is set. I1203 10:43:45.848415 23202326590592 make_examples_options.py:1204] Parsing AUX Fields: [] I1203 10:43:45.861072 23202326590592 make_examples_core.py:367] Task 4/20: Preparing inputs 2025-12-03 10:43:45.849332: E external/local_xla/xla/stream_executor/cuda/cuda_driver.cc:282] failed call to cuInit: CUDA_ERROR_NO_DEVICE: no CUDA-capable device is detected I1203 10:43:45.850260 23206887158912 make_examples_core.py:3773] model.example_info filename: /opt/models/ont_r104/model.example_info.json I1203 10:43:45.850963 23206887158912 make_examples_core.py:3777] Reading flags_for_calling from /opt/models/ont_r104/model.example_info.json I1203 10:43:45.851918 23206887158912 make_examples_core.py:3794] Flags for calling: alt_aligned_pileup: rows call_small_model_examples: True max_reads_per_partition: 600 min_mapping_quality: 1 parse_sam_aux_fields: True partition_size: 25000 phase_reads: True pileup_image_height: 100 pileup_image_width: 99 realign_reads: False small_model_indel_gq_threshold: 17 small_model_snp_gq_threshold: 9 small_model_vaf_context_window_size: 51 sort_by_haplotypes: True track_ref_reads: True trained_small_model_path: /opt/smallmodels/ont_r104 trim_reads_for_pileup: True vsc_min_fraction_indels: 0.1 vsc_min_fraction_snps: 0.1 min_base_quality: 1 I1203 10:43:45.857581 23206887158912 dv_utils.py:333] From /opt/models/ont_r104/model.example_info.json: Shape of input examples: [300, 99, 8], Channels of input examples: [1, 2, 3, 4, 5, 6, 7, 25]. W1203 10:43:45.857947 23206887158912 make_examples_options.py:1187] --parse_sam_aux_fields is deprecated. HP is parsed if --phase_reads=False and --sort_by_haplotypes, --reverse_haplotypes, or --hp_tag_for_assembly_polishing are set. HP is parsed if --phase_reads=False and the 'haplotype' channel is requested. HP is parsed if --output_phasing_error_stats is set. OQ is parsed if --use_original_quality_scores is set. MM, ML, MN are parsed if the "base_methylation" channel is requested or if --enable_methylation_calling or if --enable_methylation_aware_phasing is set. I1203 10:43:45.858069 23206887158912 make_examples_options.py:1204] Parsing AUX Fields: [] I1203 10:43:45.866834 23206887158912 make_examples_core.py:367] Task 13/20: Preparing inputs 2025-12-03 10:43:45.849332: E external/local_xla/xla/stream_executor/cuda/cuda_driver.cc:282] failed call to cuInit: CUDA_ERROR_NO_DEVICE: no CUDA-capable device is detected I1203 10:43:45.850260 22991746290816 make_examples_core.py:3773] model.example_info filename: /opt/models/ont_r104/model.example_info.json I1203 10:43:45.850964 22991746290816 make_examples_core.py:3777] Reading flags_for_calling from /opt/models/ont_r104/model.example_info.json I1203 10:43:45.851918 22991746290816 make_examples_core.py:3794] Flags for calling: alt_aligned_pileup: rows call_small_model_examples: True max_reads_per_partition: 600 min_mapping_quality: 1 parse_sam_aux_fields: True partition_size: 25000 phase_reads: True pileup_image_height: 100 pileup_image_width: 99 realign_reads: False small_model_indel_gq_threshold: 17 small_model_snp_gq_threshold: 9 small_model_vaf_context_window_size: 51 sort_by_haplotypes: True track_ref_reads: True trained_small_model_path: /opt/smallmodels/ont_r104 trim_reads_for_pileup: True vsc_min_fraction_indels: 0.1 vsc_min_fraction_snps: 0.1 min_base_quality: 1 I1203 10:43:45.857273 22991746290816 dv_utils.py:333] From /opt/models/ont_r104/model.example_info.json: Shape of input examples: [300, 99, 8], Channels of input examples: [1, 2, 3, 4, 5, 6, 7, 25]. W1203 10:43:45.857750 22991746290816 make_examples_options.py:1187] --parse_sam_aux_fields is deprecated. HP is parsed if --phase_reads=False and --sort_by_haplotypes, --reverse_haplotypes, or --hp_tag_for_assembly_polishing are set. HP is parsed if --phase_reads=False and the 'haplotype' channel is requested. HP is parsed if --output_phasing_error_stats is set. OQ is parsed if --use_original_quality_scores is set. MM, ML, MN are parsed if the "base_methylation" channel is requested or if --enable_methylation_calling or if --enable_methylation_aware_phasing is set. I1203 10:43:45.857878 22991746290816 make_examples_options.py:1204] Parsing AUX Fields: [] I1203 10:43:45.866834 22991746290816 make_examples_core.py:367] Task 10/20: Preparing inputs 2025-12-03 10:43:45.837587: E external/local_xla/xla/stream_executor/cuda/cuda_driver.cc:282] failed call to cuInit: CUDA_ERROR_NO_DEVICE: no CUDA-capable device is detected I1203 10:43:45.838464 22381951034496 make_examples_core.py:3773] model.example_info filename: /opt/models/ont_r104/model.example_info.json I1203 10:43:45.838982 22381951034496 make_examples_core.py:3777] Reading flags_for_calling from /opt/models/ont_r104/model.example_info.json I1203 10:43:45.839731 22381951034496 make_examples_core.py:3794] Flags for calling: alt_aligned_pileup: rows call_small_model_examples: True max_reads_per_partition: 600 min_mapping_quality: 1 parse_sam_aux_fields: True partition_size: 25000 phase_reads: True pileup_image_height: 100 pileup_image_width: 99 realign_reads: False small_model_indel_gq_threshold: 17 small_model_snp_gq_threshold: 9 small_model_vaf_context_window_size: 51 sort_by_haplotypes: True track_ref_reads: True trained_small_model_path: /opt/smallmodels/ont_r104 trim_reads_for_pileup: True vsc_min_fraction_indels: 0.1 vsc_min_fraction_snps: 0.1 min_base_quality: 1 I1203 10:43:45.842803 22381951034496 dv_utils.py:333] From /opt/models/ont_r104/model.example_info.json: Shape of input examples: [300, 99, 8], Channels of input examples: [1, 2, 3, 4, 5, 6, 7, 25]. W1203 10:43:45.843338 22381951034496 make_examples_options.py:1187] --parse_sam_aux_fields is deprecated. HP is parsed if --phase_reads=False and --sort_by_haplotypes, --reverse_haplotypes, or --hp_tag_for_assembly_polishing are set. HP is parsed if --phase_reads=False and the 'haplotype' channel is requested. HP is parsed if --output_phasing_error_stats is set. OQ is parsed if --use_original_quality_scores is set. MM, ML, MN are parsed if the "base_methylation" channel is requested or if --enable_methylation_calling or if --enable_methylation_aware_phasing is set. I1203 10:43:45.843516 22381951034496 make_examples_options.py:1204] Parsing AUX Fields: [] I1203 10:43:45.854410 22381951034496 make_examples_core.py:367] Task 16/20: Preparing inputs 2025-12-03 10:43:45.849177: E external/local_xla/xla/stream_executor/cuda/cuda_driver.cc:282] failed call to cuInit: CUDA_ERROR_NO_DEVICE: no CUDA-capable device is detected I1203 10:43:45.850119 22703271130240 make_examples_core.py:3773] model.example_info filename: /opt/models/ont_r104/model.example_info.json I1203 10:43:45.850829 22703271130240 make_examples_core.py:3777] Reading flags_for_calling from /opt/models/ont_r104/model.example_info.json I1203 10:43:45.851784 22703271130240 make_examples_core.py:3794] Flags for calling: alt_aligned_pileup: rows call_small_model_examples: True max_reads_per_partition: 600 min_mapping_quality: 1 parse_sam_aux_fields: True partition_size: 25000 phase_reads: True pileup_image_height: 100 pileup_image_width: 99 realign_reads: False small_model_indel_gq_threshold: 17 small_model_snp_gq_threshold: 9 small_model_vaf_context_window_size: 51 sort_by_haplotypes: True track_ref_reads: True trained_small_model_path: /opt/smallmodels/ont_r104 trim_reads_for_pileup: True vsc_min_fraction_indels: 0.1 vsc_min_fraction_snps: 0.1 min_base_quality: 1 I1203 10:43:45.857368 22703271130240 dv_utils.py:333] From /opt/models/ont_r104/model.example_info.json: Shape of input examples: [300, 99, 8], Channels of input examples: [1, 2, 3, 4, 5, 6, 7, 25]. W1203 10:43:45.857856 22703271130240 make_examples_options.py:1187] --parse_sam_aux_fields is deprecated. HP is parsed if --phase_reads=False and --sort_by_haplotypes, --reverse_haplotypes, or --hp_tag_for_assembly_polishing are set. HP is parsed if --phase_reads=False and the 'haplotype' channel is requested. HP is parsed if --output_phasing_error_stats is set. OQ is parsed if --use_original_quality_scores is set. MM, ML, MN are parsed if the "base_methylation" channel is requested or if --enable_methylation_calling or if --enable_methylation_aware_phasing is set. I1203 10:43:45.858003 22703271130240 make_examples_options.py:1204] Parsing AUX Fields: [] I1203 10:43:45.868210 22703271130240 make_examples_core.py:367] Task 19/20: Preparing inputs 2025-12-03 10:43:45.828357: E external/local_xla/xla/stream_executor/cuda/cuda_driver.cc:282] failed call to cuInit: CUDA_ERROR_NO_DEVICE: no CUDA-capable device is detected I1203 10:43:45.829100 22357532599424 make_examples_core.py:3773] model.example_info filename: /opt/models/ont_r104/model.example_info.json I1203 10:43:45.829635 22357532599424 make_examples_core.py:3777] Reading flags_for_calling from /opt/models/ont_r104/model.example_info.json I1203 10:43:45.831648 22357532599424 make_examples_core.py:3794] Flags for calling: alt_aligned_pileup: rows call_small_model_examples: True max_reads_per_partition: 600 min_mapping_quality: 1 parse_sam_aux_fields: True partition_size: 25000 phase_reads: True pileup_image_height: 100 pileup_image_width: 99 realign_reads: False small_model_indel_gq_threshold: 17 small_model_snp_gq_threshold: 9 small_model_vaf_context_window_size: 51 sort_by_haplotypes: True track_ref_reads: True trained_small_model_path: /opt/smallmodels/ont_r104 trim_reads_for_pileup: True vsc_min_fraction_indels: 0.1 vsc_min_fraction_snps: 0.1 min_base_quality: 1 I1203 10:43:45.834765 22357532599424 dv_utils.py:333] From /opt/models/ont_r104/model.example_info.json: Shape of input examples: [300, 99, 8], Channels of input examples: [1, 2, 3, 4, 5, 6, 7, 25]. W1203 10:43:45.835304 22357532599424 make_examples_options.py:1187] --parse_sam_aux_fields is deprecated. HP is parsed if --phase_reads=False and --sort_by_haplotypes, --reverse_haplotypes, or --hp_tag_for_assembly_polishing are set. HP is parsed if --phase_reads=False and the 'haplotype' channel is requested. HP is parsed if --output_phasing_error_stats is set. OQ is parsed if --use_original_quality_scores is set. MM, ML, MN are parsed if the "base_methylation" channel is requested or if --enable_methylation_calling or if --enable_methylation_aware_phasing is set. I1203 10:43:45.835480 22357532599424 make_examples_options.py:1204] Parsing AUX Fields: [] I1203 10:43:45.844181 22357532599424 make_examples_core.py:367] Task 7/20: Preparing inputs 2025-12-03 10:43:45.838623: E external/local_xla/xla/stream_executor/cuda/cuda_driver.cc:282] failed call to cuInit: CUDA_ERROR_NO_DEVICE: no CUDA-capable device is detected I1203 10:43:45.839255 22827165566080 make_examples_core.py:3773] model.example_info filename: /opt/models/ont_r104/model.example_info.json I1203 10:43:45.839714 22827165566080 make_examples_core.py:3777] Reading flags_for_calling from /opt/models/ont_r104/model.example_info.json I1203 10:43:45.840291 22827165566080 make_examples_core.py:3794] Flags for calling: alt_aligned_pileup: rows call_small_model_examples: True max_reads_per_partition: 600 min_mapping_quality: 1 parse_sam_aux_fields: True partition_size: 25000 phase_reads: True pileup_image_height: 100 pileup_image_width: 99 realign_reads: False small_model_indel_gq_threshold: 17 small_model_snp_gq_threshold: 9 small_model_vaf_context_window_size: 51 sort_by_haplotypes: True track_ref_reads: True trained_small_model_path: /opt/smallmodels/ont_r104 trim_reads_for_pileup: True vsc_min_fraction_indels: 0.1 vsc_min_fraction_snps: 0.1 min_base_quality: 1 I1203 10:43:45.843216 22827165566080 dv_utils.py:333] From /opt/models/ont_r104/model.example_info.json: Shape of input examples: [300, 99, 8], Channels of input examples: [1, 2, 3, 4, 5, 6, 7, 25]. W1203 10:43:45.843680 22827165566080 make_examples_options.py:1187] --parse_sam_aux_fields is deprecated. HP is parsed if --phase_reads=False and --sort_by_haplotypes, --reverse_haplotypes, or --hp_tag_for_assembly_polishing are set. HP is parsed if --phase_reads=False and the 'haplotype' channel is requested. HP is parsed if --output_phasing_error_stats is set. OQ is parsed if --use_original_quality_scores is set. MM, ML, MN are parsed if the "base_methylation" channel is requested or if --enable_methylation_calling or if --enable_methylation_aware_phasing is set. I1203 10:43:45.843818 22827165566080 make_examples_options.py:1204] Parsing AUX Fields: [] I1203 10:43:45.850430 22827165566080 make_examples_core.py:367] Task 0/20: Preparing inputs 2025-12-03 10:43:45.849180: E external/local_xla/xla/stream_executor/cuda/cuda_driver.cc:282] failed call to cuInit: CUDA_ERROR_NO_DEVICE: no CUDA-capable device is detected I1203 10:43:45.850118 23210098209920 make_examples_core.py:3773] model.example_info filename: /opt/models/ont_r104/model.example_info.json I1203 10:43:45.850829 23210098209920 make_examples_core.py:3777] Reading flags_for_calling from /opt/models/ont_r104/model.example_info.json I1203 10:43:45.851783 23210098209920 make_examples_core.py:3794] Flags for calling: alt_aligned_pileup: rows call_small_model_examples: True max_reads_per_partition: 600 min_mapping_quality: 1 parse_sam_aux_fields: True partition_size: 25000 phase_reads: True pileup_image_height: 100 pileup_image_width: 99 realign_reads: False small_model_indel_gq_threshold: 17 small_model_snp_gq_threshold: 9 small_model_vaf_context_window_size: 51 sort_by_haplotypes: True track_ref_reads: True trained_small_model_path: /opt/smallmodels/ont_r104 trim_reads_for_pileup: True vsc_min_fraction_indels: 0.1 vsc_min_fraction_snps: 0.1 min_base_quality: 1 I1203 10:43:45.857368 23210098209920 dv_utils.py:333] From /opt/models/ont_r104/model.example_info.json: Shape of input examples: [300, 99, 8], Channels of input examples: [1, 2, 3, 4, 5, 6, 7, 25]. W1203 10:43:45.857856 23210098209920 make_examples_options.py:1187] --parse_sam_aux_fields is deprecated. HP is parsed if --phase_reads=False and --sort_by_haplotypes, --reverse_haplotypes, or --hp_tag_for_assembly_polishing are set. HP is parsed if --phase_reads=False and the 'haplotype' channel is requested. HP is parsed if --output_phasing_error_stats is set. OQ is parsed if --use_original_quality_scores is set. MM, ML, MN are parsed if the "base_methylation" channel is requested or if --enable_methylation_calling or if --enable_methylation_aware_phasing is set. I1203 10:43:45.858003 23210098209920 make_examples_options.py:1204] Parsing AUX Fields: [] I1203 10:43:45.868210 23210098209920 make_examples_core.py:367] Task 1/20: Preparing inputs 2025-12-03 10:43:45.838532: E external/local_xla/xla/stream_executor/cuda/cuda_driver.cc:282] failed call to cuInit: CUDA_ERROR_NO_DEVICE: no CUDA-capable device is detected I1203 10:43:45.839313 23124058612864 make_examples_core.py:3773] model.example_info filename: /opt/models/ont_r104/model.example_info.json I1203 10:43:45.839864 23124058612864 make_examples_core.py:3777] Reading flags_for_calling from /opt/models/ont_r104/model.example_info.json I1203 10:43:45.840588 23124058612864 make_examples_core.py:3794] Flags for calling: alt_aligned_pileup: rows call_small_model_examples: True max_reads_per_partition: 600 min_mapping_quality: 1 parse_sam_aux_fields: True partition_size: 25000 phase_reads: True pileup_image_height: 100 pileup_image_width: 99 realign_reads: False small_model_indel_gq_threshold: 17 small_model_snp_gq_threshold: 9 small_model_vaf_context_window_size: 51 sort_by_haplotypes: True track_ref_reads: True trained_small_model_path: /opt/smallmodels/ont_r104 trim_reads_for_pileup: True vsc_min_fraction_indels: 0.1 vsc_min_fraction_snps: 0.1 min_base_quality: 1 I1203 10:43:45.845082 23124058612864 dv_utils.py:333] From /opt/models/ont_r104/model.example_info.json: Shape of input examples: [300, 99, 8], Channels of input examples: [1, 2, 3, 4, 5, 6, 7, 25]. W1203 10:43:45.845887 23124058612864 make_examples_options.py:1187] --parse_sam_aux_fields is deprecated. HP is parsed if --phase_reads=False and --sort_by_haplotypes, --reverse_haplotypes, or --hp_tag_for_assembly_polishing are set. HP is parsed if --phase_reads=False and the 'haplotype' channel is requested. HP is parsed if --output_phasing_error_stats is set. OQ is parsed if --use_original_quality_scores is set. MM, ML, MN are parsed if the "base_methylation" channel is requested or if --enable_methylation_calling or if --enable_methylation_aware_phasing is set. I1203 10:43:45.846160 23124058612864 make_examples_options.py:1204] Parsing AUX Fields: [] I1203 10:43:45.857284 23124058612864 make_examples_core.py:367] Task 18/20: Preparing inputs 2025-12-03 10:43:45.823756: E external/local_xla/xla/stream_executor/cuda/cuda_driver.cc:282] failed call to cuInit: CUDA_ERROR_NO_DEVICE: no CUDA-capable device is detected I1203 10:43:45.828233 23064502199424 make_examples_core.py:3773] model.example_info filename: /opt/models/ont_r104/model.example_info.json I1203 10:43:45.828762 23064502199424 make_examples_core.py:3777] Reading flags_for_calling from /opt/models/ont_r104/model.example_info.json I1203 10:43:45.831658 23064502199424 make_examples_core.py:3794] Flags for calling: alt_aligned_pileup: rows call_small_model_examples: True max_reads_per_partition: 600 min_mapping_quality: 1 parse_sam_aux_fields: True partition_size: 25000 phase_reads: True pileup_image_height: 100 pileup_image_width: 99 realign_reads: False small_model_indel_gq_threshold: 17 small_model_snp_gq_threshold: 9 small_model_vaf_context_window_size: 51 sort_by_haplotypes: True track_ref_reads: True trained_small_model_path: /opt/smallmodels/ont_r104 trim_reads_for_pileup: True vsc_min_fraction_indels: 0.1 vsc_min_fraction_snps: 0.1 min_base_quality: 1 I1203 10:43:45.834703 23064502199424 dv_utils.py:333] From /opt/models/ont_r104/model.example_info.json: Shape of input examples: [300, 99, 8], Channels of input examples: [1, 2, 3, 4, 5, 6, 7, 25]. W1203 10:43:45.835237 23064502199424 make_examples_options.py:1187] --parse_sam_aux_fields is deprecated. HP is parsed if --phase_reads=False and --sort_by_haplotypes, --reverse_haplotypes, or --hp_tag_for_assembly_polishing are set. HP is parsed if --phase_reads=False and the 'haplotype' channel is requested. HP is parsed if --output_phasing_error_stats is set. OQ is parsed if --use_original_quality_scores is set. MM, ML, MN are parsed if the "base_methylation" channel is requested or if --enable_methylation_calling or if --enable_methylation_aware_phasing is set. I1203 10:43:45.835439 23064502199424 make_examples_options.py:1204] Parsing AUX Fields: [] I1203 10:43:45.845346 23064502199424 make_examples_core.py:367] Task 15/20: Preparing inputs 2025-12-03 10:43:45.849261: E external/local_xla/xla/stream_executor/cuda/cuda_driver.cc:282] failed call to cuInit: CUDA_ERROR_NO_DEVICE: no CUDA-capable device is detected I1203 10:43:45.849729 23164674266240 make_examples_core.py:3773] model.example_info filename: /opt/models/ont_r104/model.example_info.json I1203 10:43:45.850112 23164674266240 make_examples_core.py:3777] Reading flags_for_calling from /opt/models/ont_r104/model.example_info.json I1203 10:43:45.850552 23164674266240 make_examples_core.py:3794] Flags for calling: alt_aligned_pileup: rows call_small_model_examples: True max_reads_per_partition: 600 min_mapping_quality: 1 parse_sam_aux_fields: True partition_size: 25000 phase_reads: True pileup_image_height: 100 pileup_image_width: 99 realign_reads: False small_model_indel_gq_threshold: 17 small_model_snp_gq_threshold: 9 small_model_vaf_context_window_size: 51 sort_by_haplotypes: True track_ref_reads: True trained_small_model_path: /opt/smallmodels/ont_r104 trim_reads_for_pileup: True vsc_min_fraction_indels: 0.1 vsc_min_fraction_snps: 0.1 min_base_quality: 1 I1203 10:43:45.851928 23164674266240 dv_utils.py:333] From /opt/models/ont_r104/model.example_info.json: Shape of input examples: [300, 99, 8], Channels of input examples: [1, 2, 3, 4, 5, 6, 7, 25]. W1203 10:43:45.852166 23164674266240 make_examples_options.py:1187] --parse_sam_aux_fields is deprecated. HP is parsed if --phase_reads=False and --sort_by_haplotypes, --reverse_haplotypes, or --hp_tag_for_assembly_polishing are set. HP is parsed if --phase_reads=False and the 'haplotype' channel is requested. HP is parsed if --output_phasing_error_stats is set. OQ is parsed if --use_original_quality_scores is set. MM, ML, MN are parsed if the "base_methylation" channel is requested or if --enable_methylation_calling or if --enable_methylation_aware_phasing is set. I1203 10:43:45.852252 23164674266240 make_examples_options.py:1204] Parsing AUX Fields: [] I1203 10:43:45.856818 23164674266240 make_examples_core.py:367] Task 12/20: Preparing inputs 2025-12-03 10:43:45.842172: E external/local_xla/xla/stream_executor/cuda/cuda_driver.cc:282] failed call to cuInit: CUDA_ERROR_NO_DEVICE: no CUDA-capable device is detected I1203 10:43:45.843114 23337856697472 make_examples_core.py:3773] model.example_info filename: /opt/models/ont_r104/model.example_info.json I1203 10:43:45.843823 23337856697472 make_examples_core.py:3777] Reading flags_for_calling from /opt/models/ont_r104/model.example_info.json I1203 10:43:45.844788 23337856697472 make_examples_core.py:3794] Flags for calling: alt_aligned_pileup: rows call_small_model_examples: True max_reads_per_partition: 600 min_mapping_quality: 1 parse_sam_aux_fields: True partition_size: 25000 phase_reads: True pileup_image_height: 100 pileup_image_width: 99 realign_reads: False small_model_indel_gq_threshold: 17 small_model_snp_gq_threshold: 9 small_model_vaf_context_window_size: 51 sort_by_haplotypes: True track_ref_reads: True trained_small_model_path: /opt/smallmodels/ont_r104 trim_reads_for_pileup: True vsc_min_fraction_indels: 0.1 vsc_min_fraction_snps: 0.1 min_base_quality: 1 I1203 10:43:45.848989 23337856697472 dv_utils.py:333] From /opt/models/ont_r104/model.example_info.json: Shape of input examples: [300, 99, 8], Channels of input examples: [1, 2, 3, 4, 5, 6, 7, 25]. W1203 10:43:45.849456 23337856697472 make_examples_options.py:1187] --parse_sam_aux_fields is deprecated. HP is parsed if --phase_reads=False and --sort_by_haplotypes, --reverse_haplotypes, or --hp_tag_for_assembly_polishing are set. HP is parsed if --phase_reads=False and the 'haplotype' channel is requested. HP is parsed if --output_phasing_error_stats is set. OQ is parsed if --use_original_quality_scores is set. MM, ML, MN are parsed if the "base_methylation" channel is requested or if --enable_methylation_calling or if --enable_methylation_aware_phasing is set. I1203 10:43:45.849598 23337856697472 make_examples_options.py:1204] Parsing AUX Fields: [] I1203 10:43:45.859279 23337856697472 make_examples_core.py:367] Task 2/20: Preparing inputs 2025-12-03 10:43:45.848822: E external/local_xla/xla/stream_executor/cuda/cuda_driver.cc:282] failed call to cuInit: CUDA_ERROR_NO_DEVICE: no CUDA-capable device is detected I1203 10:43:45.849306 23369051829376 make_examples_core.py:3773] model.example_info filename: /opt/models/ont_r104/model.example_info.json I1203 10:43:45.849612 23369051829376 make_examples_core.py:3777] Reading flags_for_calling from /opt/models/ont_r104/model.example_info.json I1203 10:43:45.849988 23369051829376 make_examples_core.py:3794] Flags for calling: alt_aligned_pileup: rows call_small_model_examples: True max_reads_per_partition: 600 min_mapping_quality: 1 parse_sam_aux_fields: True partition_size: 25000 phase_reads: True pileup_image_height: 100 pileup_image_width: 99 realign_reads: False small_model_indel_gq_threshold: 17 small_model_snp_gq_threshold: 9 small_model_vaf_context_window_size: 51 sort_by_haplotypes: True track_ref_reads: True trained_small_model_path: /opt/smallmodels/ont_r104 trim_reads_for_pileup: True vsc_min_fraction_indels: 0.1 vsc_min_fraction_snps: 0.1 min_base_quality: 1 I1203 10:43:45.851742 23369051829376 dv_utils.py:333] From /opt/models/ont_r104/model.example_info.json: Shape of input examples: [300, 99, 8], Channels of input examples: [1, 2, 3, 4, 5, 6, 7, 25]. W1203 10:43:45.852018 23369051829376 make_examples_options.py:1187] --parse_sam_aux_fields is deprecated. HP is parsed if --phase_reads=False and --sort_by_haplotypes, --reverse_haplotypes, or --hp_tag_for_assembly_polishing are set. HP is parsed if --phase_reads=False and the 'haplotype' channel is requested. HP is parsed if --output_phasing_error_stats is set. OQ is parsed if --use_original_quality_scores is set. MM, ML, MN are parsed if the "base_methylation" channel is requested or if --enable_methylation_calling or if --enable_methylation_aware_phasing is set. I1203 10:43:45.852100 23369051829376 make_examples_options.py:1204] Parsing AUX Fields: [] I1203 10:43:45.856668 23369051829376 make_examples_core.py:367] Task 9/20: Preparing inputs 2025-12-03 10:43:45.849182: E external/local_xla/xla/stream_executor/cuda/cuda_driver.cc:282] failed call to cuInit: CUDA_ERROR_NO_DEVICE: no CUDA-capable device is detected I1203 10:43:45.850033 23148431082624 make_examples_core.py:3773] model.example_info filename: /opt/models/ont_r104/model.example_info.json I1203 10:43:45.850703 23148431082624 make_examples_core.py:3777] Reading flags_for_calling from /opt/models/ont_r104/model.example_info.json I1203 10:43:45.851512 23148431082624 make_examples_core.py:3794] Flags for calling: alt_aligned_pileup: rows call_small_model_examples: True max_reads_per_partition: 600 min_mapping_quality: 1 parse_sam_aux_fields: True partition_size: 25000 phase_reads: True pileup_image_height: 100 pileup_image_width: 99 realign_reads: False small_model_indel_gq_threshold: 17 small_model_snp_gq_threshold: 9 small_model_vaf_context_window_size: 51 sort_by_haplotypes: True track_ref_reads: True trained_small_model_path: /opt/smallmodels/ont_r104 trim_reads_for_pileup: True vsc_min_fraction_indels: 0.1 vsc_min_fraction_snps: 0.1 min_base_quality: 1 I1203 10:43:45.856314 23148431082624 dv_utils.py:333] From /opt/models/ont_r104/model.example_info.json: Shape of input examples: [300, 99, 8], Channels of input examples: [1, 2, 3, 4, 5, 6, 7, 25]. W1203 10:43:45.857061 23148431082624 make_examples_options.py:1187] --parse_sam_aux_fields is deprecated. HP is parsed if --phase_reads=False and --sort_by_haplotypes, --reverse_haplotypes, or --hp_tag_for_assembly_polishing are set. HP is parsed if --phase_reads=False and the 'haplotype' channel is requested. HP is parsed if --output_phasing_error_stats is set. OQ is parsed if --use_original_quality_scores is set. MM, ML, MN are parsed if the "base_methylation" channel is requested or if --enable_methylation_calling or if --enable_methylation_aware_phasing is set. I1203 10:43:45.857318 23148431082624 make_examples_options.py:1204] Parsing AUX Fields: [] I1203 10:43:45.863647 23148431082624 make_examples_core.py:367] Task 3/20: Preparing inputs 2025-12-03 10:43:45.839172: E external/local_xla/xla/stream_executor/cuda/cuda_driver.cc:282] failed call to cuInit: CUDA_ERROR_NO_DEVICE: no CUDA-capable device is detected I1203 10:43:45.839817 23178122806400 make_examples_core.py:3773] model.example_info filename: /opt/models/ont_r104/model.example_info.json I1203 10:43:45.840300 23178122806400 make_examples_core.py:3777] Reading flags_for_calling from /opt/models/ont_r104/model.example_info.json I1203 10:43:45.840872 23178122806400 make_examples_core.py:3794] Flags for calling: alt_aligned_pileup: rows call_small_model_examples: True max_reads_per_partition: 600 min_mapping_quality: 1 parse_sam_aux_fields: True partition_size: 25000 phase_reads: True pileup_image_height: 100 pileup_image_width: 99 realign_reads: False small_model_indel_gq_threshold: 17 small_model_snp_gq_threshold: 9 small_model_vaf_context_window_size: 51 sort_by_haplotypes: True track_ref_reads: True trained_small_model_path: /opt/smallmodels/ont_r104 trim_reads_for_pileup: True vsc_min_fraction_indels: 0.1 vsc_min_fraction_snps: 0.1 min_base_quality: 1 I1203 10:43:45.843728 23178122806400 dv_utils.py:333] From /opt/models/ont_r104/model.example_info.json: Shape of input examples: [300, 99, 8], Channels of input examples: [1, 2, 3, 4, 5, 6, 7, 25]. W1203 10:43:45.844175 23178122806400 make_examples_options.py:1187] --parse_sam_aux_fields is deprecated. HP is parsed if --phase_reads=False and --sort_by_haplotypes, --reverse_haplotypes, or --hp_tag_for_assembly_polishing are set. HP is parsed if --phase_reads=False and the 'haplotype' channel is requested. HP is parsed if --output_phasing_error_stats is set. OQ is parsed if --use_original_quality_scores is set. MM, ML, MN are parsed if the "base_methylation" channel is requested or if --enable_methylation_calling or if --enable_methylation_aware_phasing is set. I1203 10:43:45.844331 23178122806400 make_examples_options.py:1204] Parsing AUX Fields: [] I1203 10:43:45.850742 23178122806400 make_examples_core.py:367] Task 8/20: Preparing inputs 2025-12-03 10:43:45.845664: E external/local_xla/xla/stream_executor/cuda/cuda_driver.cc:282] failed call to cuInit: CUDA_ERROR_NO_DEVICE: no CUDA-capable device is detected I1203 10:43:45.846546 23366177879168 make_examples_core.py:3773] model.example_info filename: /opt/models/ont_r104/model.example_info.json I1203 10:43:45.847239 23366177879168 make_examples_core.py:3777] Reading flags_for_calling from /opt/models/ont_r104/model.example_info.json I1203 10:43:45.847805 23366177879168 make_examples_core.py:3794] Flags for calling: alt_aligned_pileup: rows call_small_model_examples: True max_reads_per_partition: 600 min_mapping_quality: 1 parse_sam_aux_fields: True partition_size: 25000 phase_reads: True pileup_image_height: 100 pileup_image_width: 99 realign_reads: False small_model_indel_gq_threshold: 17 small_model_snp_gq_threshold: 9 small_model_vaf_context_window_size: 51 sort_by_haplotypes: True track_ref_reads: True trained_small_model_path: /opt/smallmodels/ont_r104 trim_reads_for_pileup: True vsc_min_fraction_indels: 0.1 vsc_min_fraction_snps: 0.1 min_base_quality: 1 I1203 10:43:45.850556 23366177879168 dv_utils.py:333] From /opt/models/ont_r104/model.example_info.json: Shape of input examples: [300, 99, 8], Channels of input examples: [1, 2, 3, 4, 5, 6, 7, 25]. W1203 10:43:45.850981 23366177879168 make_examples_options.py:1187] --parse_sam_aux_fields is deprecated. HP is parsed if --phase_reads=False and --sort_by_haplotypes, --reverse_haplotypes, or --hp_tag_for_assembly_polishing are set. HP is parsed if --phase_reads=False and the 'haplotype' channel is requested. HP is parsed if --output_phasing_error_stats is set. OQ is parsed if --use_original_quality_scores is set. MM, ML, MN are parsed if the "base_methylation" channel is requested or if --enable_methylation_calling or if --enable_methylation_aware_phasing is set. I1203 10:43:45.851120 23366177879168 make_examples_options.py:1204] Parsing AUX Fields: [] I1203 10:43:45.858985 23366177879168 make_examples_core.py:367] Task 11/20: Preparing inputs 2025-12-03 10:43:45.828281: E external/local_xla/xla/stream_executor/cuda/cuda_driver.cc:282] failed call to cuInit: CUDA_ERROR_NO_DEVICE: no CUDA-capable device is detected I1203 10:43:45.829025 22732575257728 make_examples_core.py:3773] model.example_info filename: /opt/models/ont_r104/model.example_info.json I1203 10:43:45.829558 22732575257728 make_examples_core.py:3777] Reading flags_for_calling from /opt/models/ont_r104/model.example_info.json I1203 10:43:45.831664 22732575257728 make_examples_core.py:3794] Flags for calling: alt_aligned_pileup: rows call_small_model_examples: True max_reads_per_partition: 600 min_mapping_quality: 1 parse_sam_aux_fields: True partition_size: 25000 phase_reads: True pileup_image_height: 100 pileup_image_width: 99 realign_reads: False small_model_indel_gq_threshold: 17 small_model_snp_gq_threshold: 9 small_model_vaf_context_window_size: 51 sort_by_haplotypes: True track_ref_reads: True trained_small_model_path: /opt/smallmodels/ont_r104 trim_reads_for_pileup: True vsc_min_fraction_indels: 0.1 vsc_min_fraction_snps: 0.1 min_base_quality: 1 I1203 10:43:45.834720 22732575257728 dv_utils.py:333] From /opt/models/ont_r104/model.example_info.json: Shape of input examples: [300, 99, 8], Channels of input examples: [1, 2, 3, 4, 5, 6, 7, 25]. W1203 10:43:45.835267 22732575257728 make_examples_options.py:1187] --parse_sam_aux_fields is deprecated. HP is parsed if --phase_reads=False and --sort_by_haplotypes, --reverse_haplotypes, or --hp_tag_for_assembly_polishing are set. HP is parsed if --phase_reads=False and the 'haplotype' channel is requested. HP is parsed if --output_phasing_error_stats is set. OQ is parsed if --use_original_quality_scores is set. MM, ML, MN are parsed if the "base_methylation" channel is requested or if --enable_methylation_calling or if --enable_methylation_aware_phasing is set. I1203 10:43:45.835446 22732575257728 make_examples_options.py:1204] Parsing AUX Fields: [] I1203 10:43:45.844567 22732575257728 make_examples_core.py:367] Task 5/20: Preparing inputs 2025-12-03 10:43:45.829176: E external/local_xla/xla/stream_executor/cuda/cuda_driver.cc:282] failed call to cuInit: CUDA_ERROR_NO_DEVICE: no CUDA-capable device is detected I1203 10:43:45.829962 22616695686272 make_examples_core.py:3773] model.example_info filename: /opt/models/ont_r104/model.example_info.json I1203 10:43:45.830508 22616695686272 make_examples_core.py:3777] Reading flags_for_calling from /opt/models/ont_r104/model.example_info.json I1203 10:43:45.831650 22616695686272 make_examples_core.py:3794] Flags for calling: alt_aligned_pileup: rows call_small_model_examples: True max_reads_per_partition: 600 min_mapping_quality: 1 parse_sam_aux_fields: True partition_size: 25000 phase_reads: True pileup_image_height: 100 pileup_image_width: 99 realign_reads: False small_model_indel_gq_threshold: 17 small_model_snp_gq_threshold: 9 small_model_vaf_context_window_size: 51 sort_by_haplotypes: True track_ref_reads: True trained_small_model_path: /opt/smallmodels/ont_r104 trim_reads_for_pileup: True vsc_min_fraction_indels: 0.1 vsc_min_fraction_snps: 0.1 min_base_quality: 1 I1203 10:43:45.834649 22616695686272 dv_utils.py:333] From /opt/models/ont_r104/model.example_info.json: Shape of input examples: [300, 99, 8], Channels of input examples: [1, 2, 3, 4, 5, 6, 7, 25]. W1203 10:43:45.835165 22616695686272 make_examples_options.py:1187] --parse_sam_aux_fields is deprecated. HP is parsed if --phase_reads=False and --sort_by_haplotypes, --reverse_haplotypes, or --hp_tag_for_assembly_polishing are set. HP is parsed if --phase_reads=False and the 'haplotype' channel is requested. HP is parsed if --output_phasing_error_stats is set. OQ is parsed if --use_original_quality_scores is set. MM, ML, MN are parsed if the "base_methylation" channel is requested or if --enable_methylation_calling or if --enable_methylation_aware_phasing is set. I1203 10:43:45.835356 22616695686272 make_examples_options.py:1204] Parsing AUX Fields: [] I1203 10:43:45.845720 22616695686272 make_examples_core.py:367] Task 6/20: Preparing inputs 2025-12-03 10:43:45.830230: E external/local_xla/xla/stream_executor/cuda/cuda_driver.cc:282] failed call to cuInit: CUDA_ERROR_NO_DEVICE: no CUDA-capable device is detected I1203 10:43:45.830881 22663129498752 make_examples_core.py:3773] model.example_info filename: /opt/models/ont_r104/model.example_info.json I1203 10:43:45.831396 22663129498752 make_examples_core.py:3777] Reading flags_for_calling from /opt/models/ont_r104/model.example_info.json I1203 10:43:45.832041 22663129498752 make_examples_core.py:3794] Flags for calling: alt_aligned_pileup: rows call_small_model_examples: True max_reads_per_partition: 600 min_mapping_quality: 1 parse_sam_aux_fields: True partition_size: 25000 phase_reads: True pileup_image_height: 100 pileup_image_width: 99 realign_reads: False small_model_indel_gq_threshold: 17 small_model_snp_gq_threshold: 9 small_model_vaf_context_window_size: 51 sort_by_haplotypes: True track_ref_reads: True trained_small_model_path: /opt/smallmodels/ont_r104 trim_reads_for_pileup: True vsc_min_fraction_indels: 0.1 vsc_min_fraction_snps: 0.1 min_base_quality: 1 I1203 10:43:45.835153 22663129498752 dv_utils.py:333] From /opt/models/ont_r104/model.example_info.json: Shape of input examples: [300, 99, 8], Channels of input examples: [1, 2, 3, 4, 5, 6, 7, 25]. W1203 10:43:45.835683 22663129498752 make_examples_options.py:1187] --parse_sam_aux_fields is deprecated. HP is parsed if --phase_reads=False and --sort_by_haplotypes, --reverse_haplotypes, or --hp_tag_for_assembly_polishing are set. HP is parsed if --phase_reads=False and the 'haplotype' channel is requested. HP is parsed if --output_phasing_error_stats is set. OQ is parsed if --use_original_quality_scores is set. MM, ML, MN are parsed if the "base_methylation" channel is requested or if --enable_methylation_calling or if --enable_methylation_aware_phasing is set. I1203 10:43:45.835856 22663129498752 make_examples_options.py:1204] Parsing AUX Fields: [] I1203 10:43:45.844916 22663129498752 make_examples_core.py:367] Task 17/20: Preparing inputs WARNING: All log messages before absl::InitializeLog() is called are written to STDERR W0000 00:00:1764755026.232801 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232856 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-68CCFFAB DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232870 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.232882 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-5D4F9901 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.232893 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232904 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-20599DAC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232914 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6572C6EE DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232925 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-597ABCF1 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232935 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29B2A50C DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232945 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6BEC438B DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232957 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-01118BBD DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232967 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-653B70C3 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232978 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3EBB5475 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232988 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6C17DD45 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232998 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4F90F6A0 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233009 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-5CCE3DE5 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233020 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7508C140 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233030 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-036DAB2E DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233040 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2B22EA90 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233051 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7C14CBFF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233062 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-39EBD6FA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233072 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3A8679DC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233082 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF965A7 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233093 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3B1E5ADF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233103 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-241373DA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233113 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2F791565 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233123 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-26C36137 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233133 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4CD7A9AF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233145 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.233156 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-7C7DAF22 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.233167 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233177 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1E84C59D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233187 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6A250C78 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233210 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-570E03E0 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233221 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-364ADC62 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233232 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-28118F1D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233244 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6D44EDF8 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233255 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1A2833EE DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233271 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-27453F50 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233285 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-206CBF6D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233295 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4000D348 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233310 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-603EB17B DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233320 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4696E8AD DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233335 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-06EE4A27 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233349 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3377E019 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233359 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29517C87 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233375 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-143FD879 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233385 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-36DEBBD1 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233400 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-676BB1EC DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233414 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF1AE21 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233424 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4FC349B3 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233434 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-0B86A0F4 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233444 2654913 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7B9DE63F DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 I1203 10:43:46.240667 22389068997760 genomics_reader.py:223] Reading /mnt/beegfs02/scratch/t_steimle/data/wgs/34528/norm/34528_norm_hs1.bam with NativeSamReader I1203 10:43:46.277610 22389068997760 make_examples_core.py:367] Task 14/20: Common contigs are ['chr1', 'chr2', 'chr3', 'chr4', 'chr5', 'chr6', 'chr7', 'chr8', 'chr9', 'chr10', 'chr11', 'chr12', 'chr13', 'chr14', 'chr15', 'chr16', 'chr17', 'chr18', 'chr19', 'chr20', 'chr21', 'chr22', 'chrX', 'chrY', 'chrM'] Traceback (most recent call last): File "/tmp/Bazel.runfiles_dt5j_20v/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 239, in app.run(main) File "/tmp/Bazel.runfiles_dt5j_20v/runfiles/absl_py/absl/app.py", line 312, in run _run_main(main, args) File "/tmp/Bazel.runfiles_dt5j_20v/runfiles/absl_py/absl/app.py", line 258, in _run_main sys.exit(main(argv)) File "/tmp/Bazel.runfiles_dt5j_20v/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 229, in main make_examples_core.make_examples_runner(options) File "/tmp/Bazel.runfiles_dt5j_20v/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3412, in make_examples_runner ) = processing_regions_from_options(options) File "/tmp/Bazel.runfiles_dt5j_20v/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3347, in processing_regions_from_options raise ValueError( ValueError: The regions to call is empty. Check your --regions and --exclude_regions flags to make sure they are not resulting in set of empty region to process. This also happens if you use "chr20" for a BAM where contig names don't have "chr"s (or vice versa). WARNING: All log messages before absl::InitializeLog() is called are written to STDERR W0000 00:00:1764755026.233818 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233871 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-68CCFFAB DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233882 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.233892 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-5D4F9901 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.233902 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233912 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-20599DAC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233921 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6572C6EE DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233930 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-597ABCF1 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233939 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29B2A50C DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233947 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6BEC438B DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233959 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-01118BBD DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233967 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-653B70C3 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233976 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3EBB5475 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233984 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6C17DD45 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233993 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4F90F6A0 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234002 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-5CCE3DE5 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234011 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7508C140 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234020 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-036DAB2E DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234029 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2B22EA90 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234039 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7C14CBFF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234048 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-39EBD6FA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234057 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3A8679DC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234066 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF965A7 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234074 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3B1E5ADF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234084 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-241373DA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234092 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2F791565 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234101 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-26C36137 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234109 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4CD7A9AF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234120 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.234130 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-7C7DAF22 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.234139 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234148 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1E84C59D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234157 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6A250C78 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234166 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-570E03E0 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234175 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-364ADC62 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234184 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-28118F1D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234194 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6D44EDF8 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234216 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1A2833EE DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234230 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-27453F50 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234239 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-206CBF6D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234252 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4000D348 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234264 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-603EB17B DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234277 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4696E8AD DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234286 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-06EE4A27 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234295 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3377E019 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234308 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29517C87 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234323 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-143FD879 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234334 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-36DEBBD1 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234343 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-676BB1EC DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234352 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF1AE21 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234365 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4FC349B3 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234373 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-0B86A0F4 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234382 2654911 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7B9DE63F DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 I1203 10:43:46.240603 23202326590592 genomics_reader.py:223] Reading /mnt/beegfs02/scratch/t_steimle/data/wgs/34528/norm/34528_norm_hs1.bam with NativeSamReader I1203 10:43:46.275279 23202326590592 make_examples_core.py:367] Task 4/20: Common contigs are ['chr1', 'chr2', 'chr3', 'chr4', 'chr5', 'chr6', 'chr7', 'chr8', 'chr9', 'chr10', 'chr11', 'chr12', 'chr13', 'chr14', 'chr15', 'chr16', 'chr17', 'chr18', 'chr19', 'chr20', 'chr21', 'chr22', 'chrX', 'chrY', 'chrM'] Traceback (most recent call last): File "/tmp/Bazel.runfiles_i_pvejr9/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 239, in app.run(main) File "/tmp/Bazel.runfiles_i_pvejr9/runfiles/absl_py/absl/app.py", line 312, in run _run_main(main, args) File "/tmp/Bazel.runfiles_i_pvejr9/runfiles/absl_py/absl/app.py", line 258, in _run_main sys.exit(main(argv)) File "/tmp/Bazel.runfiles_i_pvejr9/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 229, in main make_examples_core.make_examples_runner(options) File "/tmp/Bazel.runfiles_i_pvejr9/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3412, in make_examples_runner ) = processing_regions_from_options(options) File "/tmp/Bazel.runfiles_i_pvejr9/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3347, in processing_regions_from_options raise ValueError( ValueError: The regions to call is empty. Check your --regions and --exclude_regions flags to make sure they are not resulting in set of empty region to process. This also happens if you use "chr20" for a BAM where contig names don't have "chr"s (or vice versa). WARNING: All log messages before absl::InitializeLog() is called are written to STDERR W0000 00:00:1764755026.234696 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234748 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-68CCFFAB DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234759 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.234770 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-5D4F9901 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.234780 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234790 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-20599DAC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234799 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6572C6EE DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234807 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-597ABCF1 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234816 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29B2A50C DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234825 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6BEC438B DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234836 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-01118BBD DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234845 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-653B70C3 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234853 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3EBB5475 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234862 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6C17DD45 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234871 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4F90F6A0 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234881 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-5CCE3DE5 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234890 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7508C140 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234898 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-036DAB2E DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234907 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2B22EA90 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234918 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7C14CBFF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234926 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-39EBD6FA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234936 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3A8679DC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234944 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF965A7 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234953 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3B1E5ADF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234961 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-241373DA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234971 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2F791565 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234980 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-26C36137 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234989 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4CD7A9AF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234999 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.235009 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-7C7DAF22 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.235019 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.235027 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1E84C59D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.235036 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6A250C78 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.235045 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-570E03E0 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.235054 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-364ADC62 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.235063 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-28118F1D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.235072 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6D44EDF8 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.235082 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1A2833EE DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.235090 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-27453F50 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.235103 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-206CBF6D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.235116 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4000D348 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.235125 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-603EB17B DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.235137 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4696E8AD DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.235146 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-06EE4A27 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.235163 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3377E019 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.235175 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29517C87 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.235186 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-143FD879 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.235209 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-36DEBBD1 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.235218 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-676BB1EC DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.235231 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF1AE21 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.235240 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4FC349B3 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.235248 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-0B86A0F4 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.235257 2654917 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7B9DE63F DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 I1203 10:43:46.241489 23206887158912 genomics_reader.py:223] Reading /mnt/beegfs02/scratch/t_steimle/data/wgs/34528/norm/34528_norm_hs1.bam with NativeSamReader I1203 10:43:46.276722 23206887158912 make_examples_core.py:367] Task 13/20: Common contigs are ['chr1', 'chr2', 'chr3', 'chr4', 'chr5', 'chr6', 'chr7', 'chr8', 'chr9', 'chr10', 'chr11', 'chr12', 'chr13', 'chr14', 'chr15', 'chr16', 'chr17', 'chr18', 'chr19', 'chr20', 'chr21', 'chr22', 'chrX', 'chrY', 'chrM'] Traceback (most recent call last): File "/tmp/Bazel.runfiles_hr446dh3/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 239, in app.run(main) File "/tmp/Bazel.runfiles_hr446dh3/runfiles/absl_py/absl/app.py", line 312, in run _run_main(main, args) File "/tmp/Bazel.runfiles_hr446dh3/runfiles/absl_py/absl/app.py", line 258, in _run_main sys.exit(main(argv)) File "/tmp/Bazel.runfiles_hr446dh3/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 229, in main make_examples_core.make_examples_runner(options) File "/tmp/Bazel.runfiles_hr446dh3/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3412, in make_examples_runner ) = processing_regions_from_options(options) File "/tmp/Bazel.runfiles_hr446dh3/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3347, in processing_regions_from_options raise ValueError( ValueError: The regions to call is empty. Check your --regions and --exclude_regions flags to make sure they are not resulting in set of empty region to process. This also happens if you use "chr20" for a BAM where contig names don't have "chr"s (or vice versa). WARNING: All log messages before absl::InitializeLog() is called are written to STDERR W0000 00:00:1764755026.231730 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231786 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-68CCFFAB DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231800 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.231814 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-5D4F9901 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.231825 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231837 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-20599DAC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231848 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6572C6EE DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231860 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-597ABCF1 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231871 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29B2A50C DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231882 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6BEC438B DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231895 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-01118BBD DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231907 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-653B70C3 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231917 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3EBB5475 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231928 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6C17DD45 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231940 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4F90F6A0 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231951 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-5CCE3DE5 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231962 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7508C140 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231972 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-036DAB2E DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231984 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2B22EA90 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231995 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7C14CBFF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232006 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-39EBD6FA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232017 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3A8679DC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232029 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF965A7 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232040 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3B1E5ADF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232051 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-241373DA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232062 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2F791565 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232073 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-26C36137 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232085 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4CD7A9AF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232097 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.232110 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-7C7DAF22 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.232122 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232133 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1E84C59D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232144 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6A250C78 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232156 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-570E03E0 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232166 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-364ADC62 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232178 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-28118F1D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232190 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6D44EDF8 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232216 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1A2833EE DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232228 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-27453F50 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232245 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-206CBF6D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232261 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4000D348 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232271 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-603EB17B DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232290 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4696E8AD DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232301 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-06EE4A27 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232315 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3377E019 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232331 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29517C87 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232343 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-143FD879 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232358 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-36DEBBD1 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232368 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-676BB1EC DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232384 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF1AE21 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232395 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4FC349B3 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232405 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-0B86A0F4 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232417 2654908 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7B9DE63F DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 I1203 10:43:46.238258 22991746290816 genomics_reader.py:223] Reading /mnt/beegfs02/scratch/t_steimle/data/wgs/34528/norm/34528_norm_hs1.bam with NativeSamReader I1203 10:43:46.273761 22991746290816 make_examples_core.py:367] Task 10/20: Common contigs are ['chr1', 'chr2', 'chr3', 'chr4', 'chr5', 'chr6', 'chr7', 'chr8', 'chr9', 'chr10', 'chr11', 'chr12', 'chr13', 'chr14', 'chr15', 'chr16', 'chr17', 'chr18', 'chr19', 'chr20', 'chr21', 'chr22', 'chrX', 'chrY', 'chrM'] Traceback (most recent call last): File "/tmp/Bazel.runfiles_85ow0nks/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 239, in app.run(main) File "/tmp/Bazel.runfiles_85ow0nks/runfiles/absl_py/absl/app.py", line 312, in run _run_main(main, args) File "/tmp/Bazel.runfiles_85ow0nks/runfiles/absl_py/absl/app.py", line 258, in _run_main sys.exit(main(argv)) File "/tmp/Bazel.runfiles_85ow0nks/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 229, in main make_examples_core.make_examples_runner(options) File "/tmp/Bazel.runfiles_85ow0nks/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3412, in make_examples_runner ) = processing_regions_from_options(options) File "/tmp/Bazel.runfiles_85ow0nks/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3347, in processing_regions_from_options raise ValueError( ValueError: The regions to call is empty. Check your --regions and --exclude_regions flags to make sure they are not resulting in set of empty region to process. This also happens if you use "chr20" for a BAM where contig names don't have "chr"s (or vice versa). WARNING: All log messages before absl::InitializeLog() is called are written to STDERR W0000 00:00:1764755026.230745 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230794 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-68CCFFAB DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230802 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.230810 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-5D4F9901 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.230824 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230830 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-20599DAC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230837 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6572C6EE DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230843 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-597ABCF1 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230849 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29B2A50C DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230855 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6BEC438B DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230862 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-01118BBD DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230869 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-653B70C3 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230875 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3EBB5475 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230883 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6C17DD45 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230892 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4F90F6A0 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230901 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-5CCE3DE5 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230910 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7508C140 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230920 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-036DAB2E DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230930 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2B22EA90 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230942 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7C14CBFF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230953 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-39EBD6FA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230964 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3A8679DC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230974 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF965A7 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230985 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3B1E5ADF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230996 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-241373DA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231007 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2F791565 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231018 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-26C36137 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231029 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4CD7A9AF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231042 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.231055 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-7C7DAF22 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.231067 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231078 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1E84C59D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231089 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6A250C78 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231101 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-570E03E0 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231111 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-364ADC62 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231126 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-28118F1D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231138 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6D44EDF8 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231150 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1A2833EE DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231161 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-27453F50 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231178 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-206CBF6D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231193 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4000D348 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231219 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-603EB17B DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231236 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4696E8AD DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231250 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-06EE4A27 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231265 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3377E019 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231280 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29517C87 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231292 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-143FD879 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231308 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-36DEBBD1 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231319 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-676BB1EC DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231334 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF1AE21 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231344 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4FC349B3 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231354 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-0B86A0F4 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231365 2654910 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7B9DE63F DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 I1203 10:43:46.237579 22381951034496 genomics_reader.py:223] Reading /mnt/beegfs02/scratch/t_steimle/data/wgs/34528/norm/34528_norm_hs1.bam with NativeSamReader I1203 10:43:46.273404 22381951034496 make_examples_core.py:367] Task 16/20: Common contigs are ['chr1', 'chr2', 'chr3', 'chr4', 'chr5', 'chr6', 'chr7', 'chr8', 'chr9', 'chr10', 'chr11', 'chr12', 'chr13', 'chr14', 'chr15', 'chr16', 'chr17', 'chr18', 'chr19', 'chr20', 'chr21', 'chr22', 'chrX', 'chrY', 'chrM'] Traceback (most recent call last): File "/tmp/Bazel.runfiles_fj5qftqh/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 239, in app.run(main) File "/tmp/Bazel.runfiles_fj5qftqh/runfiles/absl_py/absl/app.py", line 312, in run _run_main(main, args) File "/tmp/Bazel.runfiles_fj5qftqh/runfiles/absl_py/absl/app.py", line 258, in _run_main sys.exit(main(argv)) File "/tmp/Bazel.runfiles_fj5qftqh/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 229, in main make_examples_core.make_examples_runner(options) File "/tmp/Bazel.runfiles_fj5qftqh/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3412, in make_examples_runner ) = processing_regions_from_options(options) File "/tmp/Bazel.runfiles_fj5qftqh/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3347, in processing_regions_from_options raise ValueError( ValueError: The regions to call is empty. Check your --regions and --exclude_regions flags to make sure they are not resulting in set of empty region to process. This also happens if you use "chr20" for a BAM where contig names don't have "chr"s (or vice versa). WARNING: All log messages before absl::InitializeLog() is called are written to STDERR W0000 00:00:1764755026.230230 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230280 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-68CCFFAB DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230292 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.230307 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-5D4F9901 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.230317 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230326 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-20599DAC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230335 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6572C6EE DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230345 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-597ABCF1 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230354 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29B2A50C DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230363 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6BEC438B DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230374 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-01118BBD DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230383 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-653B70C3 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230392 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3EBB5475 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230400 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6C17DD45 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230409 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4F90F6A0 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230419 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-5CCE3DE5 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230428 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7508C140 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230437 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-036DAB2E DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230446 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2B22EA90 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230456 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7C14CBFF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230465 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-39EBD6FA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230474 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3A8679DC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230483 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF965A7 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230492 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3B1E5ADF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230501 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-241373DA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230511 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2F791565 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230520 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-26C36137 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230528 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4CD7A9AF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230539 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.230549 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-7C7DAF22 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.230558 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230568 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1E84C59D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230577 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6A250C78 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230586 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-570E03E0 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230599 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-364ADC62 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230608 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-28118F1D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230618 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6D44EDF8 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230627 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1A2833EE DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230641 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-27453F50 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230654 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-206CBF6D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230662 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4000D348 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230675 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-603EB17B DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230683 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4696E8AD DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230697 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-06EE4A27 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230710 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3377E019 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230723 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29517C87 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230737 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-143FD879 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230746 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-36DEBBD1 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230759 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-676BB1EC DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230772 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF1AE21 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230780 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4FC349B3 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230789 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-0B86A0F4 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230798 2654915 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7B9DE63F DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 I1203 10:43:46.236191 22703271130240 genomics_reader.py:223] Reading /mnt/beegfs02/scratch/t_steimle/data/wgs/34528/norm/34528_norm_hs1.bam with NativeSamReader I1203 10:43:46.271882 22703271130240 make_examples_core.py:367] Task 19/20: Common contigs are ['chr1', 'chr2', 'chr3', 'chr4', 'chr5', 'chr6', 'chr7', 'chr8', 'chr9', 'chr10', 'chr11', 'chr12', 'chr13', 'chr14', 'chr15', 'chr16', 'chr17', 'chr18', 'chr19', 'chr20', 'chr21', 'chr22', 'chrX', 'chrY', 'chrM'] Traceback (most recent call last): File "/tmp/Bazel.runfiles__gdy2k6x/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 239, in app.run(main) File "/tmp/Bazel.runfiles__gdy2k6x/runfiles/absl_py/absl/app.py", line 312, in run _run_main(main, args) File "/tmp/Bazel.runfiles__gdy2k6x/runfiles/absl_py/absl/app.py", line 258, in _run_main sys.exit(main(argv)) File "/tmp/Bazel.runfiles__gdy2k6x/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 229, in main make_examples_core.make_examples_runner(options) File "/tmp/Bazel.runfiles__gdy2k6x/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3412, in make_examples_runner ) = processing_regions_from_options(options) File "/tmp/Bazel.runfiles__gdy2k6x/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3347, in processing_regions_from_options raise ValueError( ValueError: The regions to call is empty. Check your --regions and --exclude_regions flags to make sure they are not resulting in set of empty region to process. This also happens if you use "chr20" for a BAM where contig names don't have "chr"s (or vice versa). WARNING: All log messages before absl::InitializeLog() is called are written to STDERR W0000 00:00:1764755026.232818 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232871 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-68CCFFAB DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232884 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.232895 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-5D4F9901 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.232906 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232917 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-20599DAC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232926 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6572C6EE DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232937 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-597ABCF1 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232947 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29B2A50C DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232956 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6BEC438B DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232968 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-01118BBD DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232978 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-653B70C3 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232988 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3EBB5475 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232997 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6C17DD45 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233007 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4F90F6A0 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233017 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-5CCE3DE5 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233027 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7508C140 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233037 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-036DAB2E DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233047 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2B22EA90 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233057 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7C14CBFF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233067 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-39EBD6FA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233077 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3A8679DC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233086 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF965A7 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233096 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3B1E5ADF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233106 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-241373DA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233116 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2F791565 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233125 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-26C36137 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233135 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4CD7A9AF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233147 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.233158 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-7C7DAF22 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.233168 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233178 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1E84C59D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233188 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6A250C78 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233212 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-570E03E0 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233222 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-364ADC62 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233232 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-28118F1D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233243 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6D44EDF8 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233254 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1A2833EE DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233263 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-27453F50 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233277 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-206CBF6D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233291 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4000D348 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233301 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-603EB17B DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233315 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4696E8AD DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233324 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-06EE4A27 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233338 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3377E019 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233352 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29517C87 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233362 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-143FD879 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233376 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-36DEBBD1 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233386 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-676BB1EC DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233403 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF1AE21 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233413 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4FC349B3 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233423 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-0B86A0F4 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233432 2654902 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7B9DE63F DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 I1203 10:43:46.240299 22357532599424 genomics_reader.py:223] Reading /mnt/beegfs02/scratch/t_steimle/data/wgs/34528/norm/34528_norm_hs1.bam with NativeSamReader I1203 10:43:46.276117 22357532599424 make_examples_core.py:367] Task 7/20: Common contigs are ['chr1', 'chr2', 'chr3', 'chr4', 'chr5', 'chr6', 'chr7', 'chr8', 'chr9', 'chr10', 'chr11', 'chr12', 'chr13', 'chr14', 'chr15', 'chr16', 'chr17', 'chr18', 'chr19', 'chr20', 'chr21', 'chr22', 'chrX', 'chrY', 'chrM'] Traceback (most recent call last): File "/tmp/Bazel.runfiles__f00eson/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 239, in app.run(main) File "/tmp/Bazel.runfiles__f00eson/runfiles/absl_py/absl/app.py", line 312, in run _run_main(main, args) File "/tmp/Bazel.runfiles__f00eson/runfiles/absl_py/absl/app.py", line 258, in _run_main sys.exit(main(argv)) File "/tmp/Bazel.runfiles__f00eson/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 229, in main make_examples_core.make_examples_runner(options) File "/tmp/Bazel.runfiles__f00eson/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3412, in make_examples_runner ) = processing_regions_from_options(options) File "/tmp/Bazel.runfiles__f00eson/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3347, in processing_regions_from_options raise ValueError( ValueError: The regions to call is empty. Check your --regions and --exclude_regions flags to make sure they are not resulting in set of empty region to process. This also happens if you use "chr20" for a BAM where contig names don't have "chr"s (or vice versa). WARNING: All log messages before absl::InitializeLog() is called are written to STDERR W0000 00:00:1764755026.232820 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232871 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-68CCFFAB DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232884 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.232896 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-5D4F9901 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.232907 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232917 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-20599DAC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232927 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6572C6EE DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232937 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-597ABCF1 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232946 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29B2A50C DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232956 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6BEC438B DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232968 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-01118BBD DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232978 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-653B70C3 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232988 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3EBB5475 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232998 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6C17DD45 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233007 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4F90F6A0 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233017 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-5CCE3DE5 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233027 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7508C140 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233037 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-036DAB2E DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233046 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2B22EA90 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233057 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7C14CBFF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233067 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-39EBD6FA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233077 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3A8679DC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233086 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF965A7 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233096 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3B1E5ADF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233106 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-241373DA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233115 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2F791565 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233125 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-26C36137 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233135 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4CD7A9AF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233147 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.233157 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-7C7DAF22 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.233167 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233177 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1E84C59D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233187 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6A250C78 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233211 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-570E03E0 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233222 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-364ADC62 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233232 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-28118F1D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233242 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6D44EDF8 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233254 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1A2833EE DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233268 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-27453F50 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233277 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-206CBF6D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233292 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4000D348 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233305 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-603EB17B DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233315 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4696E8AD DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233328 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-06EE4A27 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233341 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3377E019 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233351 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29517C87 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233366 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-143FD879 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233375 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-36DEBBD1 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233389 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-676BB1EC DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233402 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF1AE21 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233411 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4FC349B3 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233420 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-0B86A0F4 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233430 2654909 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7B9DE63F DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 I1203 10:43:46.240241 22827165566080 genomics_reader.py:223] Reading /mnt/beegfs02/scratch/t_steimle/data/wgs/34528/norm/34528_norm_hs1.bam with NativeSamReader I1203 10:43:46.275840 22827165566080 make_examples_core.py:367] Task 0/20: Common contigs are ['chr1', 'chr2', 'chr3', 'chr4', 'chr5', 'chr6', 'chr7', 'chr8', 'chr9', 'chr10', 'chr11', 'chr12', 'chr13', 'chr14', 'chr15', 'chr16', 'chr17', 'chr18', 'chr19', 'chr20', 'chr21', 'chr22', 'chrX', 'chrY', 'chrM'] Traceback (most recent call last): File "/tmp/Bazel.runfiles_n1zn00v5/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 239, in app.run(main) File "/tmp/Bazel.runfiles_n1zn00v5/runfiles/absl_py/absl/app.py", line 312, in run _run_main(main, args) File "/tmp/Bazel.runfiles_n1zn00v5/runfiles/absl_py/absl/app.py", line 258, in _run_main sys.exit(main(argv)) File "/tmp/Bazel.runfiles_n1zn00v5/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 229, in main make_examples_core.make_examples_runner(options) File "/tmp/Bazel.runfiles_n1zn00v5/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3412, in make_examples_runner ) = processing_regions_from_options(options) File "/tmp/Bazel.runfiles_n1zn00v5/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3347, in processing_regions_from_options raise ValueError( ValueError: The regions to call is empty. Check your --regions and --exclude_regions flags to make sure they are not resulting in set of empty region to process. This also happens if you use "chr20" for a BAM where contig names don't have "chr"s (or vice versa). WARNING: All log messages before absl::InitializeLog() is called are written to STDERR W0000 00:00:1764755026.233701 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233746 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-68CCFFAB DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233753 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.233759 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-5D4F9901 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.233765 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233770 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-20599DAC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233775 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6572C6EE DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233780 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-597ABCF1 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233785 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29B2A50C DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233790 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6BEC438B DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233796 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-01118BBD DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233801 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-653B70C3 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233806 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3EBB5475 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233810 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6C17DD45 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233815 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4F90F6A0 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233820 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-5CCE3DE5 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233825 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7508C140 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233829 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-036DAB2E DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233834 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2B22EA90 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233840 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7C14CBFF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233845 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-39EBD6FA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233850 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3A8679DC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233854 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF965A7 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233859 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3B1E5ADF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233864 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-241373DA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233868 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2F791565 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233873 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-26C36137 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233878 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4CD7A9AF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233883 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.233889 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-7C7DAF22 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.233894 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233898 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1E84C59D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233903 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6A250C78 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233908 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-570E03E0 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233913 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-364ADC62 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233919 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-28118F1D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233928 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6D44EDF8 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233936 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1A2833EE DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233946 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-27453F50 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233952 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-206CBF6D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233966 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4000D348 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233978 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-603EB17B DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233992 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4696E8AD DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234001 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-06EE4A27 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234009 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3377E019 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234022 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29517C87 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234035 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-143FD879 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234048 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-36DEBBD1 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234056 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-676BB1EC DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234065 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF1AE21 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234078 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4FC349B3 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234087 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-0B86A0F4 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.234095 2654904 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7B9DE63F DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 I1203 10:43:46.240329 23210098209920 genomics_reader.py:223] Reading /mnt/beegfs02/scratch/t_steimle/data/wgs/34528/norm/34528_norm_hs1.bam with NativeSamReader I1203 10:43:46.275877 23210098209920 make_examples_core.py:367] Task 1/20: Common contigs are ['chr1', 'chr2', 'chr3', 'chr4', 'chr5', 'chr6', 'chr7', 'chr8', 'chr9', 'chr10', 'chr11', 'chr12', 'chr13', 'chr14', 'chr15', 'chr16', 'chr17', 'chr18', 'chr19', 'chr20', 'chr21', 'chr22', 'chrX', 'chrY', 'chrM'] Traceback (most recent call last): File "/tmp/Bazel.runfiles_2rdjofrk/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 239, in app.run(main) File "/tmp/Bazel.runfiles_2rdjofrk/runfiles/absl_py/absl/app.py", line 312, in run _run_main(main, args) File "/tmp/Bazel.runfiles_2rdjofrk/runfiles/absl_py/absl/app.py", line 258, in _run_main sys.exit(main(argv)) File "/tmp/Bazel.runfiles_2rdjofrk/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 229, in main make_examples_core.make_examples_runner(options) File "/tmp/Bazel.runfiles_2rdjofrk/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3412, in make_examples_runner ) = processing_regions_from_options(options) File "/tmp/Bazel.runfiles_2rdjofrk/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3347, in processing_regions_from_options raise ValueError( ValueError: The regions to call is empty. Check your --regions and --exclude_regions flags to make sure they are not resulting in set of empty region to process. This also happens if you use "chr20" for a BAM where contig names don't have "chr"s (or vice versa). WARNING: All log messages before absl::InitializeLog() is called are written to STDERR W0000 00:00:1764755026.232799 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232856 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-68CCFFAB DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232870 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.232882 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-5D4F9901 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.232893 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232903 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-20599DAC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232913 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6572C6EE DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232924 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-597ABCF1 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232934 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29B2A50C DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232944 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6BEC438B DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232957 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-01118BBD DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232968 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-653B70C3 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232978 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3EBB5475 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232988 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6C17DD45 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232998 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4F90F6A0 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233009 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-5CCE3DE5 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233020 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7508C140 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233030 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-036DAB2E DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233040 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2B22EA90 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233051 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7C14CBFF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233061 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-39EBD6FA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233071 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3A8679DC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233082 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF965A7 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233092 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3B1E5ADF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233102 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-241373DA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233113 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2F791565 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233123 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-26C36137 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233133 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4CD7A9AF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233145 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.233156 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-7C7DAF22 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.233166 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233177 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1E84C59D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233187 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6A250C78 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233210 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-570E03E0 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233221 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-364ADC62 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233232 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-28118F1D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233244 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6D44EDF8 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233255 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1A2833EE DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233271 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-27453F50 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233282 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-206CBF6D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233296 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4000D348 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233311 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-603EB17B DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233321 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4696E8AD DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233336 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-06EE4A27 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233346 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3377E019 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233360 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29517C87 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233380 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-143FD879 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233390 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-36DEBBD1 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233404 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-676BB1EC DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233414 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF1AE21 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233428 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4FC349B3 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233438 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-0B86A0F4 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233447 2654918 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7B9DE63F DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 I1203 10:43:46.240679 23124058612864 genomics_reader.py:223] Reading /mnt/beegfs02/scratch/t_steimle/data/wgs/34528/norm/34528_norm_hs1.bam with NativeSamReader I1203 10:43:46.276942 23124058612864 make_examples_core.py:367] Task 18/20: Common contigs are ['chr1', 'chr2', 'chr3', 'chr4', 'chr5', 'chr6', 'chr7', 'chr8', 'chr9', 'chr10', 'chr11', 'chr12', 'chr13', 'chr14', 'chr15', 'chr16', 'chr17', 'chr18', 'chr19', 'chr20', 'chr21', 'chr22', 'chrX', 'chrY', 'chrM'] Traceback (most recent call last): File "/tmp/Bazel.runfiles_yfrwrgv_/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 239, in app.run(main) File "/tmp/Bazel.runfiles_yfrwrgv_/runfiles/absl_py/absl/app.py", line 312, in run _run_main(main, args) File "/tmp/Bazel.runfiles_yfrwrgv_/runfiles/absl_py/absl/app.py", line 258, in _run_main sys.exit(main(argv)) File "/tmp/Bazel.runfiles_yfrwrgv_/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 229, in main make_examples_core.make_examples_runner(options) File "/tmp/Bazel.runfiles_yfrwrgv_/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3412, in make_examples_runner ) = processing_regions_from_options(options) File "/tmp/Bazel.runfiles_yfrwrgv_/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3347, in processing_regions_from_options raise ValueError( ValueError: The regions to call is empty. Check your --regions and --exclude_regions flags to make sure they are not resulting in set of empty region to process. This also happens if you use "chr20" for a BAM where contig names don't have "chr"s (or vice versa). WARNING: All log messages before absl::InitializeLog() is called are written to STDERR W0000 00:00:1764755026.230826 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230879 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-68CCFFAB DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230891 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.230902 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-5D4F9901 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.230912 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230926 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-20599DAC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230935 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6572C6EE DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230944 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-597ABCF1 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230953 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29B2A50C DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230962 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6BEC438B DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230973 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-01118BBD DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230983 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-653B70C3 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230992 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3EBB5475 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231000 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6C17DD45 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231010 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4F90F6A0 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231019 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-5CCE3DE5 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231028 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7508C140 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231036 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-036DAB2E DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231048 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2B22EA90 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231058 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7C14CBFF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231067 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-39EBD6FA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231077 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3A8679DC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231085 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF965A7 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231094 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3B1E5ADF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231103 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-241373DA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231112 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2F791565 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231121 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-26C36137 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231129 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4CD7A9AF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231139 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.231149 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-7C7DAF22 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.231158 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231167 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1E84C59D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231175 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6A250C78 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231184 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-570E03E0 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231193 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-364ADC62 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231217 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-28118F1D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231228 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6D44EDF8 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231238 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1A2833EE DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231247 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-27453F50 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231261 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-206CBF6D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231275 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4000D348 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231287 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-603EB17B DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231296 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4696E8AD DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231305 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-06EE4A27 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231317 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3377E019 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231330 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29517C87 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231343 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-143FD879 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231352 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-36DEBBD1 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231370 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-676BB1EC DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231378 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF1AE21 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231387 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4FC349B3 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231397 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-0B86A0F4 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231404 2654907 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7B9DE63F DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 I1203 10:43:46.236624 23064502199424 genomics_reader.py:223] Reading /mnt/beegfs02/scratch/t_steimle/data/wgs/34528/norm/34528_norm_hs1.bam with NativeSamReader I1203 10:43:46.272005 23064502199424 make_examples_core.py:367] Task 15/20: Common contigs are ['chr1', 'chr2', 'chr3', 'chr4', 'chr5', 'chr6', 'chr7', 'chr8', 'chr9', 'chr10', 'chr11', 'chr12', 'chr13', 'chr14', 'chr15', 'chr16', 'chr17', 'chr18', 'chr19', 'chr20', 'chr21', 'chr22', 'chrX', 'chrY', 'chrM'] Traceback (most recent call last): File "/tmp/Bazel.runfiles_2pl5uz35/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 239, in app.run(main) File "/tmp/Bazel.runfiles_2pl5uz35/runfiles/absl_py/absl/app.py", line 312, in run _run_main(main, args) File "/tmp/Bazel.runfiles_2pl5uz35/runfiles/absl_py/absl/app.py", line 258, in _run_main sys.exit(main(argv)) File "/tmp/Bazel.runfiles_2pl5uz35/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 229, in main make_examples_core.make_examples_runner(options) File "/tmp/Bazel.runfiles_2pl5uz35/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3412, in make_examples_runner ) = processing_regions_from_options(options) File "/tmp/Bazel.runfiles_2pl5uz35/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3347, in processing_regions_from_options raise ValueError( ValueError: The regions to call is empty. Check your --regions and --exclude_regions flags to make sure they are not resulting in set of empty region to process. This also happens if you use "chr20" for a BAM where contig names don't have "chr"s (or vice versa). WARNING: All log messages before absl::InitializeLog() is called are written to STDERR W0000 00:00:1764755026.230224 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230280 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-68CCFFAB DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230292 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.230302 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-5D4F9901 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.230312 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230321 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-20599DAC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230331 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6572C6EE DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230341 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-597ABCF1 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230350 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29B2A50C DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230359 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6BEC438B DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230370 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-01118BBD DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230379 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-653B70C3 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230389 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3EBB5475 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230398 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6C17DD45 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230407 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4F90F6A0 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230417 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-5CCE3DE5 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230426 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7508C140 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230435 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-036DAB2E DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230444 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2B22EA90 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230454 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7C14CBFF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230463 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-39EBD6FA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230472 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3A8679DC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230482 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF965A7 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230491 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3B1E5ADF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230500 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-241373DA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230509 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2F791565 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230519 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-26C36137 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230528 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4CD7A9AF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230539 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.230549 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-7C7DAF22 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.230558 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230568 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1E84C59D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230577 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6A250C78 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230586 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-570E03E0 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230595 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-364ADC62 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230605 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-28118F1D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230615 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6D44EDF8 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230630 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1A2833EE DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230639 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-27453F50 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230652 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-206CBF6D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230665 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4000D348 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230674 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-603EB17B DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230687 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4696E8AD DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230695 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-06EE4A27 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230709 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3377E019 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230721 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29517C87 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230731 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-143FD879 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230745 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-36DEBBD1 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230754 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-676BB1EC DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230767 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF1AE21 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230776 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4FC349B3 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230785 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-0B86A0F4 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.230795 2654903 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7B9DE63F DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 I1203 10:43:46.236191 23164674266240 genomics_reader.py:223] Reading /mnt/beegfs02/scratch/t_steimle/data/wgs/34528/norm/34528_norm_hs1.bam with NativeSamReader I1203 10:43:46.271681 23164674266240 make_examples_core.py:367] Task 12/20: Common contigs are ['chr1', 'chr2', 'chr3', 'chr4', 'chr5', 'chr6', 'chr7', 'chr8', 'chr9', 'chr10', 'chr11', 'chr12', 'chr13', 'chr14', 'chr15', 'chr16', 'chr17', 'chr18', 'chr19', 'chr20', 'chr21', 'chr22', 'chrX', 'chrY', 'chrM'] Traceback (most recent call last): File "/tmp/Bazel.runfiles_fcy4cxbj/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 239, in app.run(main) File "/tmp/Bazel.runfiles_fcy4cxbj/runfiles/absl_py/absl/app.py", line 312, in run _run_main(main, args) File "/tmp/Bazel.runfiles_fcy4cxbj/runfiles/absl_py/absl/app.py", line 258, in _run_main sys.exit(main(argv)) File "/tmp/Bazel.runfiles_fcy4cxbj/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 229, in main make_examples_core.make_examples_runner(options) File "/tmp/Bazel.runfiles_fcy4cxbj/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3412, in make_examples_runner ) = processing_regions_from_options(options) File "/tmp/Bazel.runfiles_fcy4cxbj/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3347, in processing_regions_from_options raise ValueError( ValueError: The regions to call is empty. Check your --regions and --exclude_regions flags to make sure they are not resulting in set of empty region to process. This also happens if you use "chr20" for a BAM where contig names don't have "chr"s (or vice versa). WARNING: All log messages before absl::InitializeLog() is called are written to STDERR W0000 00:00:1764755026.231129 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231185 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-68CCFFAB DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231214 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.231234 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-5D4F9901 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.231247 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231259 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-20599DAC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231270 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6572C6EE DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231282 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-597ABCF1 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231294 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29B2A50C DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231306 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6BEC438B DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231320 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-01118BBD DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231332 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-653B70C3 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231344 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3EBB5475 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231355 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6C17DD45 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231367 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4F90F6A0 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231385 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-5CCE3DE5 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231397 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7508C140 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231409 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-036DAB2E DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231421 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2B22EA90 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231434 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7C14CBFF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231446 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-39EBD6FA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231457 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3A8679DC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231470 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF965A7 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231482 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3B1E5ADF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231494 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-241373DA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231509 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2F791565 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231521 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-26C36137 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231532 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4CD7A9AF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231546 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.231558 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-7C7DAF22 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.231570 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231582 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1E84C59D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231593 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6A250C78 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231605 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-570E03E0 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231617 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-364ADC62 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231628 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-28118F1D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231641 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6D44EDF8 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231654 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1A2833EE DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231665 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-27453F50 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231682 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-206CBF6D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231698 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4000D348 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231709 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-603EB17B DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231725 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4696E8AD DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231736 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-06EE4A27 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231753 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3377E019 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231769 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29517C87 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231781 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-143FD879 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231797 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-36DEBBD1 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231808 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-676BB1EC DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231824 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF1AE21 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231836 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4FC349B3 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231847 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-0B86A0F4 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231858 2654906 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7B9DE63F DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 I1203 10:43:46.238079 23337856697472 genomics_reader.py:223] Reading /mnt/beegfs02/scratch/t_steimle/data/wgs/34528/norm/34528_norm_hs1.bam with NativeSamReader I1203 10:43:46.274924 23337856697472 make_examples_core.py:367] Task 2/20: Common contigs are ['chr1', 'chr2', 'chr3', 'chr4', 'chr5', 'chr6', 'chr7', 'chr8', 'chr9', 'chr10', 'chr11', 'chr12', 'chr13', 'chr14', 'chr15', 'chr16', 'chr17', 'chr18', 'chr19', 'chr20', 'chr21', 'chr22', 'chrX', 'chrY', 'chrM'] Traceback (most recent call last): File "/tmp/Bazel.runfiles_1c4tr8s7/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 239, in app.run(main) File "/tmp/Bazel.runfiles_1c4tr8s7/runfiles/absl_py/absl/app.py", line 312, in run _run_main(main, args) File "/tmp/Bazel.runfiles_1c4tr8s7/runfiles/absl_py/absl/app.py", line 258, in _run_main sys.exit(main(argv)) File "/tmp/Bazel.runfiles_1c4tr8s7/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 229, in main make_examples_core.make_examples_runner(options) File "/tmp/Bazel.runfiles_1c4tr8s7/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3412, in make_examples_runner ) = processing_regions_from_options(options) File "/tmp/Bazel.runfiles_1c4tr8s7/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3347, in processing_regions_from_options raise ValueError( ValueError: The regions to call is empty. Check your --regions and --exclude_regions flags to make sure they are not resulting in set of empty region to process. This also happens if you use "chr20" for a BAM where contig names don't have "chr"s (or vice versa). WARNING: All log messages before absl::InitializeLog() is called are written to STDERR W0000 00:00:1764755026.231671 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231721 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-68CCFFAB DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231735 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.231748 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-5D4F9901 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.231764 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231774 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-20599DAC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231785 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6572C6EE DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231796 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-597ABCF1 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231807 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29B2A50C DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231819 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6BEC438B DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231832 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-01118BBD DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231844 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-653B70C3 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231855 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3EBB5475 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231867 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6C17DD45 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231878 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4F90F6A0 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231890 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-5CCE3DE5 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231901 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7508C140 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231912 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-036DAB2E DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231924 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2B22EA90 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231937 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7C14CBFF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231949 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-39EBD6FA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231961 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3A8679DC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231973 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF965A7 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231985 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3B1E5ADF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231996 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-241373DA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232008 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2F791565 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232020 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-26C36137 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232032 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4CD7A9AF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232046 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.232059 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-7C7DAF22 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.232071 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232083 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1E84C59D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232096 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6A250C78 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232107 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-570E03E0 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232120 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-364ADC62 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232132 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-28118F1D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232146 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6D44EDF8 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232160 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1A2833EE DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232171 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-27453F50 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232189 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-206CBF6D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232220 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4000D348 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232231 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-603EB17B DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232247 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4696E8AD DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232257 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-06EE4A27 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232273 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3377E019 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232288 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29517C87 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232301 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-143FD879 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232315 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-36DEBBD1 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232323 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-676BB1EC DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232333 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF1AE21 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232340 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4FC349B3 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232346 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-0B86A0F4 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232352 2654900 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7B9DE63F DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 I1203 10:43:46.238524 23369051829376 genomics_reader.py:223] Reading /mnt/beegfs02/scratch/t_steimle/data/wgs/34528/norm/34528_norm_hs1.bam with NativeSamReader I1203 10:43:46.275593 23369051829376 make_examples_core.py:367] Task 9/20: Common contigs are ['chr1', 'chr2', 'chr3', 'chr4', 'chr5', 'chr6', 'chr7', 'chr8', 'chr9', 'chr10', 'chr11', 'chr12', 'chr13', 'chr14', 'chr15', 'chr16', 'chr17', 'chr18', 'chr19', 'chr20', 'chr21', 'chr22', 'chrX', 'chrY', 'chrM'] Traceback (most recent call last): File "/tmp/Bazel.runfiles_d59fqul3/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 239, in app.run(main) File "/tmp/Bazel.runfiles_d59fqul3/runfiles/absl_py/absl/app.py", line 312, in run _run_main(main, args) File "/tmp/Bazel.runfiles_d59fqul3/runfiles/absl_py/absl/app.py", line 258, in _run_main sys.exit(main(argv)) File "/tmp/Bazel.runfiles_d59fqul3/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 229, in main make_examples_core.make_examples_runner(options) File "/tmp/Bazel.runfiles_d59fqul3/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3412, in make_examples_runner ) = processing_regions_from_options(options) File "/tmp/Bazel.runfiles_d59fqul3/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3347, in processing_regions_from_options raise ValueError( ValueError: The regions to call is empty. Check your --regions and --exclude_regions flags to make sure they are not resulting in set of empty region to process. This also happens if you use "chr20" for a BAM where contig names don't have "chr"s (or vice versa). WARNING: All log messages before absl::InitializeLog() is called are written to STDERR W0000 00:00:1764755026.231679 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231746 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-68CCFFAB DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231762 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.231777 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-5D4F9901 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.231790 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231803 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-20599DAC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231815 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6572C6EE DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231829 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-597ABCF1 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231841 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29B2A50C DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231853 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6BEC438B DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231869 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-01118BBD DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231882 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-653B70C3 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231893 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3EBB5475 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231905 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6C17DD45 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231918 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4F90F6A0 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231931 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-5CCE3DE5 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231943 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7508C140 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231955 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-036DAB2E DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231968 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2B22EA90 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231981 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7C14CBFF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231992 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-39EBD6FA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232004 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3A8679DC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232014 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF965A7 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232021 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3B1E5ADF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232028 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-241373DA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232035 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2F791565 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232041 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-26C36137 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232048 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4CD7A9AF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232057 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.232065 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-7C7DAF22 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.232072 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232079 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1E84C59D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232086 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6A250C78 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232093 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-570E03E0 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232100 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-364ADC62 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232107 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-28118F1D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232115 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6D44EDF8 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232124 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1A2833EE DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232131 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-27453F50 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232148 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-206CBF6D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232167 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4000D348 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232179 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-603EB17B DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232211 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4696E8AD DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232223 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-06EE4A27 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232242 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3377E019 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232260 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29517C87 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232277 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-143FD879 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232290 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-36DEBBD1 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232301 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-676BB1EC DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232318 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF1AE21 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232331 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4FC349B3 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232344 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-0B86A0F4 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232355 2654919 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7B9DE63F DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 I1203 10:43:46.239027 23148431082624 genomics_reader.py:223] Reading /mnt/beegfs02/scratch/t_steimle/data/wgs/34528/norm/34528_norm_hs1.bam with NativeSamReader I1203 10:43:46.274657 23148431082624 make_examples_core.py:367] Task 3/20: Common contigs are ['chr1', 'chr2', 'chr3', 'chr4', 'chr5', 'chr6', 'chr7', 'chr8', 'chr9', 'chr10', 'chr11', 'chr12', 'chr13', 'chr14', 'chr15', 'chr16', 'chr17', 'chr18', 'chr19', 'chr20', 'chr21', 'chr22', 'chrX', 'chrY', 'chrM'] Traceback (most recent call last): File "/tmp/Bazel.runfiles_2234hl18/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 239, in app.run(main) File "/tmp/Bazel.runfiles_2234hl18/runfiles/absl_py/absl/app.py", line 312, in run _run_main(main, args) File "/tmp/Bazel.runfiles_2234hl18/runfiles/absl_py/absl/app.py", line 258, in _run_main sys.exit(main(argv)) File "/tmp/Bazel.runfiles_2234hl18/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 229, in main make_examples_core.make_examples_runner(options) File "/tmp/Bazel.runfiles_2234hl18/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3412, in make_examples_runner ) = processing_regions_from_options(options) File "/tmp/Bazel.runfiles_2234hl18/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3347, in processing_regions_from_options raise ValueError( ValueError: The regions to call is empty. Check your --regions and --exclude_regions flags to make sure they are not resulting in set of empty region to process. This also happens if you use "chr20" for a BAM where contig names don't have "chr"s (or vice versa). WARNING: All log messages before absl::InitializeLog() is called are written to STDERR W0000 00:00:1764755026.231556 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231601 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-68CCFFAB DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231612 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.231622 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-5D4F9901 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.231632 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231641 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-20599DAC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231650 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6572C6EE DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231659 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-597ABCF1 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231668 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29B2A50C DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231678 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6BEC438B DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231688 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-01118BBD DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231697 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-653B70C3 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231706 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3EBB5475 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231715 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6C17DD45 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231724 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4F90F6A0 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231733 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-5CCE3DE5 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231742 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7508C140 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231751 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-036DAB2E DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231760 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2B22EA90 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231770 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7C14CBFF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231779 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-39EBD6FA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231788 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3A8679DC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231796 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF965A7 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231805 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3B1E5ADF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231814 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-241373DA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231823 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2F791565 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231831 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-26C36137 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231840 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4CD7A9AF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231850 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.231860 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-7C7DAF22 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.231869 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231878 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1E84C59D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231887 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6A250C78 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231895 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-570E03E0 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231904 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-364ADC62 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231913 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-28118F1D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231923 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6D44EDF8 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231933 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1A2833EE DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231945 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-27453F50 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231958 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-206CBF6D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231967 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4000D348 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231979 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-603EB17B DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231988 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4696E8AD DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232001 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-06EE4A27 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232013 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3377E019 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232021 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29517C87 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232035 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-143FD879 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232044 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-36DEBBD1 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232057 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-676BB1EC DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232070 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF1AE21 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232078 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4FC349B3 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232087 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-0B86A0F4 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232096 2654914 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7B9DE63F DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 I1203 10:43:46.237028 23178122806400 genomics_reader.py:223] Reading /mnt/beegfs02/scratch/t_steimle/data/wgs/34528/norm/34528_norm_hs1.bam with NativeSamReader I1203 10:43:46.272170 23178122806400 make_examples_core.py:367] Task 8/20: Common contigs are ['chr1', 'chr2', 'chr3', 'chr4', 'chr5', 'chr6', 'chr7', 'chr8', 'chr9', 'chr10', 'chr11', 'chr12', 'chr13', 'chr14', 'chr15', 'chr16', 'chr17', 'chr18', 'chr19', 'chr20', 'chr21', 'chr22', 'chrX', 'chrY', 'chrM'] Traceback (most recent call last): File "/tmp/Bazel.runfiles_q5mw2231/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 239, in app.run(main) File "/tmp/Bazel.runfiles_q5mw2231/runfiles/absl_py/absl/app.py", line 312, in run _run_main(main, args) File "/tmp/Bazel.runfiles_q5mw2231/runfiles/absl_py/absl/app.py", line 258, in _run_main sys.exit(main(argv)) File "/tmp/Bazel.runfiles_q5mw2231/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 229, in main make_examples_core.make_examples_runner(options) File "/tmp/Bazel.runfiles_q5mw2231/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3412, in make_examples_runner ) = processing_regions_from_options(options) File "/tmp/Bazel.runfiles_q5mw2231/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3347, in processing_regions_from_options raise ValueError( ValueError: The regions to call is empty. Check your --regions and --exclude_regions flags to make sure they are not resulting in set of empty region to process. This also happens if you use "chr20" for a BAM where contig names don't have "chr"s (or vice versa). WARNING: All log messages before absl::InitializeLog() is called are written to STDERR W0000 00:00:1764755026.233016 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233066 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-68CCFFAB DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233078 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.233089 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-5D4F9901 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.233099 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233108 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-20599DAC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233117 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6572C6EE DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233127 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-597ABCF1 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233136 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29B2A50C DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233145 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6BEC438B DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233155 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-01118BBD DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233165 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-653B70C3 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233175 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3EBB5475 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233184 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6C17DD45 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233194 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4F90F6A0 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233216 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-5CCE3DE5 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233226 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7508C140 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233235 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-036DAB2E DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233244 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2B22EA90 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233254 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7C14CBFF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233264 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-39EBD6FA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233273 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3A8679DC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233283 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF965A7 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233292 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3B1E5ADF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233301 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-241373DA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233310 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2F791565 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233319 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-26C36137 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233329 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4CD7A9AF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233340 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.233350 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-7C7DAF22 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.233360 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233370 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1E84C59D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233380 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6A250C78 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233389 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-570E03E0 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233399 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-364ADC62 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233408 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-28118F1D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233418 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6D44EDF8 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233433 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1A2833EE DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233442 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-27453F50 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233455 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-206CBF6D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233464 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4000D348 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233477 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-603EB17B DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233489 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4696E8AD DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233499 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-06EE4A27 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233511 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3377E019 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233524 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29517C87 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233534 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-143FD879 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233546 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-36DEBBD1 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233555 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-676BB1EC DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233567 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF1AE21 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233576 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4FC349B3 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233584 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-0B86A0F4 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.233593 2654916 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7B9DE63F DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 I1203 10:43:46.240024 23366177879168 genomics_reader.py:223] Reading /mnt/beegfs02/scratch/t_steimle/data/wgs/34528/norm/34528_norm_hs1.bam with NativeSamReader I1203 10:43:46.275054 23366177879168 make_examples_core.py:367] Task 11/20: Common contigs are ['chr1', 'chr2', 'chr3', 'chr4', 'chr5', 'chr6', 'chr7', 'chr8', 'chr9', 'chr10', 'chr11', 'chr12', 'chr13', 'chr14', 'chr15', 'chr16', 'chr17', 'chr18', 'chr19', 'chr20', 'chr21', 'chr22', 'chrX', 'chrY', 'chrM'] Traceback (most recent call last): File "/tmp/Bazel.runfiles_256ycuvl/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 239, in app.run(main) File "/tmp/Bazel.runfiles_256ycuvl/runfiles/absl_py/absl/app.py", line 312, in run _run_main(main, args) File "/tmp/Bazel.runfiles_256ycuvl/runfiles/absl_py/absl/app.py", line 258, in _run_main sys.exit(main(argv)) File "/tmp/Bazel.runfiles_256ycuvl/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 229, in main make_examples_core.make_examples_runner(options) File "/tmp/Bazel.runfiles_256ycuvl/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3412, in make_examples_runner ) = processing_regions_from_options(options) File "/tmp/Bazel.runfiles_256ycuvl/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3347, in processing_regions_from_options raise ValueError( ValueError: The regions to call is empty. Check your --regions and --exclude_regions flags to make sure they are not resulting in set of empty region to process. This also happens if you use "chr20" for a BAM where contig names don't have "chr"s (or vice versa). WARNING: All log messages before absl::InitializeLog() is called are written to STDERR W0000 00:00:1764755026.231120 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231185 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-68CCFFAB DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231217 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.231233 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-5D4F9901 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.231246 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231258 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-20599DAC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231270 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6572C6EE DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231283 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-597ABCF1 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231294 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29B2A50C DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231306 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6BEC438B DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231320 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-01118BBD DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231332 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-653B70C3 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231343 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3EBB5475 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231355 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6C17DD45 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231367 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4F90F6A0 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231379 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-5CCE3DE5 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231390 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7508C140 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231402 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-036DAB2E DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231414 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2B22EA90 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231427 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7C14CBFF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231439 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-39EBD6FA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231450 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3A8679DC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231462 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF965A7 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231473 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3B1E5ADF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231485 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-241373DA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231497 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2F791565 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231508 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-26C36137 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231519 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4CD7A9AF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231533 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.231545 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-7C7DAF22 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.231557 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231569 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1E84C59D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231580 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6A250C78 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231592 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-570E03E0 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231604 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-364ADC62 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231616 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-28118F1D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231629 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6D44EDF8 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231643 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1A2833EE DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231654 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-27453F50 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231670 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-206CBF6D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231686 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4000D348 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231697 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-603EB17B DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231713 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4696E8AD DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231724 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-06EE4A27 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231740 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3377E019 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231756 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29517C87 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231769 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-143FD879 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231785 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-36DEBBD1 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231796 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-676BB1EC DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231812 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF1AE21 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231823 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4FC349B3 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231834 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-0B86A0F4 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231845 2654905 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7B9DE63F DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 I1203 10:43:46.238080 22732575257728 genomics_reader.py:223] Reading /mnt/beegfs02/scratch/t_steimle/data/wgs/34528/norm/34528_norm_hs1.bam with NativeSamReader I1203 10:43:46.275093 22732575257728 make_examples_core.py:367] Task 5/20: Common contigs are ['chr1', 'chr2', 'chr3', 'chr4', 'chr5', 'chr6', 'chr7', 'chr8', 'chr9', 'chr10', 'chr11', 'chr12', 'chr13', 'chr14', 'chr15', 'chr16', 'chr17', 'chr18', 'chr19', 'chr20', 'chr21', 'chr22', 'chrX', 'chrY', 'chrM'] Traceback (most recent call last): File "/tmp/Bazel.runfiles_u0p2kt61/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 239, in app.run(main) File "/tmp/Bazel.runfiles_u0p2kt61/runfiles/absl_py/absl/app.py", line 312, in run _run_main(main, args) File "/tmp/Bazel.runfiles_u0p2kt61/runfiles/absl_py/absl/app.py", line 258, in _run_main sys.exit(main(argv)) File "/tmp/Bazel.runfiles_u0p2kt61/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 229, in main make_examples_core.make_examples_runner(options) File "/tmp/Bazel.runfiles_u0p2kt61/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3412, in make_examples_runner ) = processing_regions_from_options(options) File "/tmp/Bazel.runfiles_u0p2kt61/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3347, in processing_regions_from_options raise ValueError( ValueError: The regions to call is empty. Check your --regions and --exclude_regions flags to make sure they are not resulting in set of empty region to process. This also happens if you use "chr20" for a BAM where contig names don't have "chr"s (or vice versa). WARNING: All log messages before absl::InitializeLog() is called are written to STDERR W0000 00:00:1764755026.231753 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231812 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-68CCFFAB DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231827 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.231841 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-5D4F9901 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.231853 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231866 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-20599DAC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231877 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6572C6EE DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231889 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-597ABCF1 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231902 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29B2A50C DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231913 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6BEC438B DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231926 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-01118BBD DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231938 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-653B70C3 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231949 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3EBB5475 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231961 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6C17DD45 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231973 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4F90F6A0 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231985 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-5CCE3DE5 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231997 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7508C140 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232009 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-036DAB2E DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232020 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2B22EA90 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232033 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7C14CBFF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232045 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-39EBD6FA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232057 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3A8679DC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232068 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF965A7 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232081 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3B1E5ADF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232092 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-241373DA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232104 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2F791565 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232116 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-26C36137 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232128 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4CD7A9AF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232142 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.232155 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-7C7DAF22 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.232167 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232179 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1E84C59D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232191 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6A250C78 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232217 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-570E03E0 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232230 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-364ADC62 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232242 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-28118F1D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232256 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6D44EDF8 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232268 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1A2833EE DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232286 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-27453F50 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232297 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-206CBF6D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232313 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4000D348 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232329 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-603EB17B DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232340 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4696E8AD DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232357 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-06EE4A27 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232368 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3377E019 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232384 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29517C87 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232401 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-143FD879 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232412 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-36DEBBD1 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232429 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-676BB1EC DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232440 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF1AE21 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232456 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4FC349B3 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232468 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-0B86A0F4 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232479 2654901 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7B9DE63F DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 I1203 10:43:46.239025 22616695686272 genomics_reader.py:223] Reading /mnt/beegfs02/scratch/t_steimle/data/wgs/34528/norm/34528_norm_hs1.bam with NativeSamReader I1203 10:43:46.275942 22616695686272 make_examples_core.py:367] Task 6/20: Common contigs are ['chr1', 'chr2', 'chr3', 'chr4', 'chr5', 'chr6', 'chr7', 'chr8', 'chr9', 'chr10', 'chr11', 'chr12', 'chr13', 'chr14', 'chr15', 'chr16', 'chr17', 'chr18', 'chr19', 'chr20', 'chr21', 'chr22', 'chrX', 'chrY', 'chrM'] Traceback (most recent call last): File "/tmp/Bazel.runfiles_5vbd34z3/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 239, in app.run(main) File "/tmp/Bazel.runfiles_5vbd34z3/runfiles/absl_py/absl/app.py", line 312, in run _run_main(main, args) File "/tmp/Bazel.runfiles_5vbd34z3/runfiles/absl_py/absl/app.py", line 258, in _run_main sys.exit(main(argv)) File "/tmp/Bazel.runfiles_5vbd34z3/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 229, in main make_examples_core.make_examples_runner(options) File "/tmp/Bazel.runfiles_5vbd34z3/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3412, in make_examples_runner ) = processing_regions_from_options(options) File "/tmp/Bazel.runfiles_5vbd34z3/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3347, in processing_regions_from_options raise ValueError( ValueError: The regions to call is empty. Check your --regions and --exclude_regions flags to make sure they are not resulting in set of empty region to process. This also happens if you use "chr20" for a BAM where contig names don't have "chr"s (or vice versa). WARNING: All log messages before absl::InitializeLog() is called are written to STDERR W0000 00:00:1764755026.231762 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231811 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:2505d455-8133-41a4-9849-be709486d097_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-68CCFFAB DT:2025-11-18T08:43:11.938816+00:00 DS:runid=2505d455-8133-41a4-9849-be709486d097 basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231827 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.231840 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-5D4F9901 PU:PBI54633 PM:P2I-00461 DT:2025-11-17T09:15:32.631000+00:00 PL:ONT DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:B BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.231853 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231865 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-20599DAC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231878 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6572C6EE DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231890 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-597ABCF1 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231901 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29B2A50C DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231912 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6BEC438B DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231926 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-01118BBD DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231938 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-653B70C3 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231949 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3EBB5475 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231961 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6C17DD45 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231973 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4F90F6A0 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231985 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-5CCE3DE5 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.231997 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7508C140 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232008 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-036DAB2E DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232020 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2B22EA90 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232033 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7C14CBFF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232045 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-39EBD6FA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232057 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3A8679DC DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232068 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF965A7 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232080 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3B1E5ADF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232092 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-241373DA DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232104 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2F791565 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232115 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-26C36137 DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232127 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:d4d7692a-b866-4486-b4a3-fe20e038b24e_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4CD7A9AF DT:2025-11-17T09:17:30.054183+00:00 DS:runid=d4d7692a-b866-4486-b4a3-fe20e038b24e basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:B PL:ONT PM:P2I-00461-B PU:PBI54633 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232142 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.232155 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_SQK-NBD114-24_barcode02-7C7DAF22 PU:PBI55810 PM:P2I-00461 DT:2025-11-17T09:15:32.619000+00:00 PL:ONT DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=dna_r10.4.1_e8.2_400bps_sup@v5.2.0_5mC_5hmC@v2 LB:A BC:ACAGACGACTACAAACGGAATCGA SM:barcode02 al:barcode02 W0000 00:00:1764755026.232167 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232179 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1E84C59D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232190 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6A250C78 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232217 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-570E03E0 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232229 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-364ADC62 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232242 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-28118F1D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232255 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-6D44EDF8 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232274 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-1A2833EE DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232286 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-27453F50 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232302 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-206CBF6D DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232313 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4000D348 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232334 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-603EB17B DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232350 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4696E8AD DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232362 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-06EE4A27 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232378 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-3377E019 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232395 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-29517C87 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232407 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-143FD879 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232424 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-36DEBBD1 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232436 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-676BB1EC DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232452 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-2BF1AE21 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232464 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-4FC349B3 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232476 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-0B86A0F4 DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 W0000 00:00:1764755026.232487 2654912 sam_reader.cc:184] Unknown tag al: in RG line, ignoring: @RG ID:22582b29-2858-43a6-86ee-47ed858dbcde_dna_r10.4.1_e8.2_400bps_sup@v5.2.0_barcode02-7B9DE63F DT:2025-11-17T09:17:36.649395+00:00 DS:runid=22582b29-2858-43a6-86ee-47ed858dbcde basecall_model=dna_r10.4.1_e8.2_400bps_sup@v5.2.0 modbase_models=modbase_model_version_id LB:A PL:ONT PM:P2I-00461-A PU:PBI55810 SM:barcode02 al:barcode02 I1203 10:43:46.239078 22663129498752 genomics_reader.py:223] Reading /mnt/beegfs02/scratch/t_steimle/data/wgs/34528/norm/34528_norm_hs1.bam with NativeSamReader I1203 10:43:46.275942 22663129498752 make_examples_core.py:367] Task 17/20: Common contigs are ['chr1', 'chr2', 'chr3', 'chr4', 'chr5', 'chr6', 'chr7', 'chr8', 'chr9', 'chr10', 'chr11', 'chr12', 'chr13', 'chr14', 'chr15', 'chr16', 'chr17', 'chr18', 'chr19', 'chr20', 'chr21', 'chr22', 'chrX', 'chrY', 'chrM'] Traceback (most recent call last): File "/tmp/Bazel.runfiles_8bebu17u/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 239, in app.run(main) File "/tmp/Bazel.runfiles_8bebu17u/runfiles/absl_py/absl/app.py", line 312, in run _run_main(main, args) File "/tmp/Bazel.runfiles_8bebu17u/runfiles/absl_py/absl/app.py", line 258, in _run_main sys.exit(main(argv)) File "/tmp/Bazel.runfiles_8bebu17u/runfiles/com_google_deepvariant/deepvariant/make_examples.py", line 229, in main make_examples_core.make_examples_runner(options) File "/tmp/Bazel.runfiles_8bebu17u/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3412, in make_examples_runner ) = processing_regions_from_options(options) File "/tmp/Bazel.runfiles_8bebu17u/runfiles/com_google_deepvariant/deepvariant/make_examples_core.py", line 3347, in processing_regions_from_options raise ValueError( ValueError: The regions to call is empty. Check your --regions and --exclude_regions flags to make sure they are not resulting in set of empty region to process. This also happens if you use "chr20" for a BAM where contig names don't have "chr"s (or vice versa). parallel: This job failed: /opt/deepvariant/bin/make_examples --mode calling --ref /home/t_steimle/ref/hs1/chm13v2.0.fa --reads /mnt/beegfs02/scratch/t_steimle/data/wgs/34528/norm/34528_norm_hs1.bam --examples '/tmp/tmp8ho9n4o4/make_examples.tfrecord@20.gz' --checkpoint /opt/models/ont_r104 --par_regions_bed /home/t_steimle/ref/hs1/chm13v2.0_PAR.bed --regions 'chr6:66983782-172126628,chr7:1-160567428,chr8:1-146259331,chr9:1-150617247,chrM:1-16569,chrX:1-154259566,chrY:1-62460029' --sample_name 34528_norm --task 15 real 0m21.919s user 0m22.275s sys 0m5.426s ---------------------------------------------- | SLURM EPILOG | ---------------------------------------------- Job ID: 2507862 Cluster: flamingo User/Group: t_steimle/gs_hpc_biopath Nodelist: gpu03 Nodes: 1 Cores per node: 20 Job started at: 2025-12-03 10:43:14 Job ended at: 2025-12-03 10:43:48 Job Wall-clock time: 00:00:34 CPU Utilized: 00:02:22 CPU Efficiency: 20.88% of 00:11:20 core-walltime Memory Utilized: 5.37 GB Memory Efficiency: 8.95% of 60.00 GB