first commit

cli.js

@@ -0,0 +1,110 @@
+"use strict";
+var __awaiter = (this && this.__awaiter) || function (thisArg, _arguments, P, generator) {
+    function adopt(value) { return value instanceof P ? value : new P(function (resolve) { resolve(value); }); }
+    return new (P || (P = Promise))(function (resolve, reject) {
+        function fulfilled(value) { try { step(generator.next(value)); } catch (e) { reject(e); } }
+        function rejected(value) { try { step(generator["throw"](value)); } catch (e) { reject(e); } }
+        function step(result) { result.done ? resolve(result.value) : adopt(result.value).then(fulfilled, rejected); }
+        step((generator = generator.apply(thisArg, _arguments || [])).next());
+    });
+};
+var __importDefault = (this && this.__importDefault) || function (mod) {
+    return (mod && mod.__esModule) ? mod : { "default": mod };
+};
+Object.defineProperty(exports, "__esModule", { value: true });
+const chalk_1 = __importDefault(require("chalk"));
+const _1 = require(".");
+const blessed_1 = __importDefault(require("blessed"));
+const formatSeq = (seq) => {
+    return seq.split('').map(c => {
+        let r;
+        switch (c) {
+            case 'A':
+                r = chalk_1.default.green(c);
+                break;
+            case 'T':
+                r = chalk_1.default.red(c);
+                break;
+            case 'C':
+                r = chalk_1.default.blue(c);
+                break;
+            case 'G':
+                r = chalk_1.default.yellow(c);
+                break;
+            case '.':
+                //r = chalk.hex('#FF0000').bgBlue(' ')
+                // r = chalk.bgHex('#DEADED').underline(' ')
+                // break;
+                r = c;
+            default:
+                r = c;
+                break;
+        }
+        return r;
+    }).join('');
+};
+const combineSTr = (strings, lineN) => {
+    const splittedSts = [];
+    const r = new RegExp(".{1," + lineN + "}", "g");
+    for (const s of strings) {
+        const tmpLines = s.match(r) || [];
+        const resLines = [];
+        for (const line of tmpLines)
+            resLines.push(line.length < lineN ? line + ' '.repeat(lineN - line.length) : line);
+        splittedSts.push(resLines);
+    }
+    const firstLines = splittedSts.shift() || [];
+    return firstLines.map((e, i) => formatSeq(e.toUpperCase()) + formatSeq(splittedSts.map(ee => ee[i]).join(''))).join('');
+};
+(() => __awaiter(void 0, void 0, void 0, function* () {
+    const arg = process.argv.slice(2);
+    console.log(chalk_1.default.blue('Welcome to gbffParser!'));
+    if (arg.length === 0 || arg.length > 1) {
+        console.log(chalk_1.default.red('Usage : cli.js <Accession>'));
+    }
+    else {
+        var screen = blessed_1.default.screen({
+            smartCSR: true
+        });
+        screen.title = 'gbffParser';
+        //blessed.text({})
+        var box = blessed_1.default.box({
+            top: 'center',
+            left: 'center',
+            width: '95%',
+            height: '95%',
+            content: 'Hello {bold}world{/bold}!',
+            tags: true,
+            border: {
+                type: 'line'
+            },
+            scrollable: true,
+            scrollbar: {
+                style: { bg: 'blue' },
+            },
+            keys: true,
+            mouse: false,
+            style: {
+                fg: 'white',
+                bg: 'black',
+                border: {
+                    fg: '#f0f0f0'
+                }
+            }
+        });
+        screen.append(box);
+        screen.key(['escape', 'q', 'C-c'], (ch, key) => {
+            return process.exit(0);
+        });
+        const dbPath = [1, 2, 3, 4, 5, 6, 7, 8, 9, 10].map(n => '/home/thomas/NGS/ref/RNA/human.' + n + '.rna.gbff');
+        const result = yield (0, _1.getFromAcc)(arg[0], dbPath);
+        // console.log(result)
+        if (result) {
+            box.setContent(result.sequence);
+            box.focus();
+            const lineN = box.getScreenLines()[0].length;
+            box.setContent(combineSTr([result.sequence, result.sequence.split('').map(e => '.').join('')], lineN));
+            screen.render();
+        }
+    }
+}))();

cli.ts

@@ -0,0 +1,110 @@
+import chalk from 'chalk';
+import { getFromAcc } from '.'
+import blessed from 'blessed'
+
+const formatSeq = (seq:string) => {
+    return seq.split('').map(c => {
+        let r
+        switch (c) {
+            case 'A':
+                r = chalk.green(c)
+                break;
+            case 'T':
+                r = chalk.red(c)
+                break;
+            case 'C':
+                r = chalk.blue(c)
+                break;
+            case 'G':
+                r = chalk.yellow(c)
+                break;
+            case '.':
+                //r = chalk.hex('#FF0000').bgBlue(' ')
+                // r = chalk.bgHex('#DEADED').underline(' ')
+                // break;
+                r = c
+            default:
+                r = c
+                break;
+        }
+        return r
+    }).join('')
+}
+
+const combineSTr = (strings: string[], lineN:number) => {
+    const splittedSts: RegExpMatchArray[] = []
+    const r = new RegExp(".{1," + lineN + "}","g");
+    for (const s of strings) {
+        const tmpLines = s.match(r) || []
+        const resLines = []
+        for (const line of tmpLines) resLines.push(line.length < lineN ? line + ' '.repeat(lineN - line.length) : line)
+        splittedSts.push(resLines)
+    }
+    const firstLines = splittedSts.shift() || []
+    return firstLines.map((e,i) => formatSeq(e.toUpperCase()) + formatSeq(splittedSts.map(ee => ee[i]).join(''))).join('')
+}
+
+(async()=>{
+    const arg = process.argv.slice(2)
+    console.log(chalk.blue('Welcome to gbffParser!'))
+    if (arg.length === 0 || arg.length > 1) {
+        console.log(chalk.red('Usage : cli.js <Accession>'))
+    } else {
+        var screen = blessed.screen({
+            smartCSR: true
+        })
+        screen.title = 'gbffParser'
+        //blessed.text({})
+     
+        var box = blessed.box({
+            top: 'center',
+            left: 'center',
+            width: '95%',
+            height: '95%',
+            content: 'Hello {bold}world{/bold}!',
+            tags: true,
+            border: {
+              type: 'line'
+            },
+            scrollable: true,
+            scrollbar: {
+                style: {bg: 'blue'},
+            },          
+            keys: true,
+            mouse: false,
+            style: {
+              fg: 'white',
+              bg: 'black',
+              border: {
+                fg: '#f0f0f0'
+              }
+            }
+        })
+        
+        
+        screen.append(box)
+        screen.key(['escape', 'q', 'C-c'], (ch, key) => {
+            return process.exit(0);
+        })
+          
+        const dbPath = [1,2,3,4,5,6,7,8,9,10].map(n => '/home/thomas/NGS/ref/RNA/human.' + n + '.rna.gbff')
+        const result = await getFromAcc(arg[0], dbPath)
+        // console.log(result)
+        if (result) {
+            
+            box.setContent(result.sequence)
+            box.focus();
+            
+            const lineN = box.getScreenLines()[0].length
+            box.setContent(combineSTr([result.sequence, result.sequence.split('').map(e => '.').join('')], lineN))
+            
+
+            screen.render();
+            
+            
+            
+        }
+        
+
+    }
+})()

index.js

@@ -0,0 +1,151 @@
+"use strict";
+// wget ftp://ftp.ncbi.nlm.nih.gov/refseq/H_sapiens/mRNA_Prot/human.6.rna.gbff.gz
+var __awaiter = (this && this.__awaiter) || function (thisArg, _arguments, P, generator) {
+    function adopt(value) { return value instanceof P ? value : new P(function (resolve) { resolve(value); }); }
+    return new (P || (P = Promise))(function (resolve, reject) {
+        function fulfilled(value) { try { step(generator.next(value)); } catch (e) { reject(e); } }
+        function rejected(value) { try { step(generator["throw"](value)); } catch (e) { reject(e); } }
+        function step(result) { result.done ? resolve(result.value) : adopt(result.value).then(fulfilled, rejected); }
+        step((generator = generator.apply(thisArg, _arguments || [])).next());
+    });
+};
+var __asyncValues = (this && this.__asyncValues) || function (o) {
+    if (!Symbol.asyncIterator) throw new TypeError("Symbol.asyncIterator is not defined.");
+    var m = o[Symbol.asyncIterator], i;
+    return m ? m.call(o) : (o = typeof __values === "function" ? __values(o) : o[Symbol.iterator](), i = {}, verb("next"), verb("throw"), verb("return"), i[Symbol.asyncIterator] = function () { return this; }, i);
+    function verb(n) { i[n] = o[n] && function (v) { return new Promise(function (resolve, reject) { v = o[n](v), settle(resolve, reject, v.done, v.value); }); }; }
+    function settle(resolve, reject, d, v) { Promise.resolve(v).then(function(v) { resolve({ value: v, done: d }); }, reject); }
+};
+var __importDefault = (this && this.__importDefault) || function (mod) {
+    return (mod && mod.__esModule) ? mod : { "default": mod };
+};
+Object.defineProperty(exports, "__esModule", { value: true });
+exports.getFromAcc = void 0;
+const fs_1 = __importDefault(require("fs"));
+const readline_1 = __importDefault(require("readline"));
+const buffer_1 = require("buffer");
+const genbank_parser_1 = __importDefault(require("genbank-parser"));
+const line$ = (path) => readline_1.default.createInterface({
+    input: fs_1.default.createReadStream(path),
+    crlfDelay: Infinity
+});
+const readOffset = (path, from, to) => {
+    return new Promise((resolve, reject) => __awaiter(void 0, void 0, void 0, function* () {
+        const size = to - from;
+        const buffer = buffer_1.Buffer.alloc(size);
+        let filehandle = null;
+        try {
+            filehandle = yield fs_1.default.promises.open(path, 'r+');
+            yield filehandle.read(buffer, 0, buffer.length, from);
+        }
+        finally {
+            if (filehandle) {
+                yield filehandle.close();
+                resolve(buffer.toString());
+            }
+        }
+    }));
+};
+/*
+ * strings -a -t d human.1.rna.gbff | grep LOCUS | awk '{print $1"\t"$3}' > human.1.rna.gbff.index
+ *
+ */
+const makeGbffIndex = (filePath, lineSize = 80, indexPath) => __awaiter(void 0, void 0, void 0, function* () {
+    var e_1, _a;
+    indexPath = indexPath || filePath + '.jsi';
+    let entries = [];
+    let lineN = 0;
+    let byteAcc = 0;
+    try {
+        for (var _b = __asyncValues(line$(filePath)), _c; _c = yield _b.next(), !_c.done;) {
+            const line = _c.value;
+            if (line.match(/^LOCUS/)) {
+                entries.push({
+                    filePath,
+                    value: line.split(/\s+/)[1],
+                    from: byteAcc
+                });
+                if (lineN !== 0) {
+                    entries[entries.length - 2]["to"] = byteAcc;
+                    yield fs_1.default.promises.appendFile(indexPath, [
+                        entries[entries.length - 2]["value"],
+                        entries[entries.length - 2]["from"],
+                        entries[entries.length - 2]["to"]
+                    ].join('\t') + '\n');
+                    entries = entries.splice(1);
+                }
+            }
+            byteAcc += (line.length + 1);
+            lineN++;
+        }
+    }
+    catch (e_1_1) { e_1 = { error: e_1_1 }; }
+    finally {
+        try {
+            if (_c && !_c.done && (_a = _b.return)) yield _a.call(_b);
+        }
+        finally { if (e_1) throw e_1.error; }
+    }
+    entries[entries.length - 1]["to"] = byteAcc;
+    yield fs_1.default.promises.appendFile(indexPath, [
+        entries[entries.length - 1]["value"],
+        entries[entries.length - 1]["from"],
+        entries[entries.length - 1]["to"]
+    ].join('\t'));
+    return entries;
+});
+const getOffset = (indexPath, acc) => __awaiter(void 0, void 0, void 0, function* () {
+    var e_2, _d;
+    let res;
+    try {
+        for (var _e = __asyncValues(line$(indexPath)), _f; _f = yield _e.next(), !_f.done;) {
+            const line = _f.value;
+            const tmp = line.split('\t');
+            if (tmp[0] === acc) {
+                res = [indexPath.split('.jsi')[0], tmp[1], tmp[2]];
+                break;
+            }
+        }
+    }
+    catch (e_2_1) { e_2 = { error: e_2_1 }; }
+    finally {
+        try {
+            if (_f && !_f.done && (_d = _e.return)) yield _d.call(_e);
+        }
+        finally { if (e_2) throw e_2.error; }
+    }
+    return res;
+});
+const getFromAcc = (acc, dbPath, indexPath) => __awaiter(void 0, void 0, void 0, function* () {
+    dbPath = Array.isArray(dbPath) ? dbPath : [dbPath];
+    if (!indexPath) {
+        indexPath = [];
+        for (const p of dbPath) {
+            const iP = p + '.jsi';
+            if (!fs_1.default.existsSync(iP)) {
+                console.log('Writing index: ' + iP);
+                yield makeGbffIndex(p);
+            }
+            indexPath.push(iP);
+        }
+    }
+    else {
+        indexPath = Array.isArray(indexPath) ? indexPath : [indexPath];
+        if (indexPath.length !== dbPath.length)
+            throw 'Error';
+    }
+    let i = 0;
+    let res;
+    for (const p of dbPath) {
+        res = yield getOffset(indexPath[i], acc);
+        if (res)
+            break;
+        i++;
+    }
+    if (res) {
+        const rr = yield readOffset(res[0], Number(res[1]), Number(res[2]));
+        res = (0, genbank_parser_1.default)(rr)[0];
+    }
+    return res;
+});
+exports.getFromAcc = getFromAcc;

index.ts

@@ -0,0 +1,115 @@
+// wget ftp://ftp.ncbi.nlm.nih.gov/refseq/H_sapiens/mRNA_Prot/human.6.rna.gbff.gz
+
+import fs from 'fs'
+import readline from 'readline'
+import { Buffer } from 'buffer'
+import genbankParser from 'genbank-parser'
+
+const line$ = (path: string) => readline.createInterface({
+    input: fs.createReadStream(path),
+    crlfDelay: Infinity
+});
+
+const readOffset = (path: string, from:number, to:number) => {
+    return new Promise<string>(async (resolve, reject) => {
+        const size = to - from
+        const buffer = Buffer.alloc(size);
+        let filehandle = null;
+        try {
+            filehandle = await fs.promises.open(path, 'r+');
+            await filehandle.read(buffer, 0, buffer.length, from);
+        } finally {
+            if (filehandle) {
+                await filehandle.close()
+                resolve(buffer.toString())
+            }
+        }
+    })
+}
+
+/*
+ * strings -a -t d human.1.rna.gbff | grep LOCUS | awk '{print $1"\t"$3}' > human.1.rna.gbff.index
+ * 
+ */
+const makeGbffIndex = async (filePath: string, lineSize = 80, indexPath?: string) => {
+    interface entry {
+        filePath: string;
+        value   : string;
+        from    : number;
+        to     ?: number;
+    }
+    indexPath = indexPath || filePath + '.jsi'
+    let entries = [] as entry[]
+    let lineN   = 0
+    let byteAcc = 0
+    for await (const line of line$(filePath)) {
+        if(line.match(/^LOCUS/)) {
+            entries.push({
+                filePath,
+                value   : line.split(/\s+/)[1],
+                from    : byteAcc
+            })
+            if(lineN !== 0) {
+                entries[entries.length - 2]["to"] = byteAcc 
+                await fs.promises.appendFile(indexPath, [
+                    entries[entries.length - 2]["value"],
+                    entries[entries.length - 2]["from"],
+                    entries[entries.length - 2]["to"]].join('\t') + '\n')
+                entries = entries.splice(1)
+            }
+        }
+        byteAcc += (line.length + 1)
+        lineN++
+    }
+    entries[entries.length - 1]["to"] = byteAcc
+    
+    await fs.promises.appendFile(indexPath, [
+        entries[entries.length - 1]["value"],
+        entries[entries.length - 1]["from"],
+        entries[entries.length - 1]["to"]].join('\t'))
+    return entries
+}
+
+const getOffset = async (indexPath: string, acc: string) => {
+    let res
+    for await (const line of line$(indexPath)) {
+        const tmp = line.split('\t')
+        if (tmp[0] === acc) {
+            res = [indexPath.split('.jsi')[0], tmp[1], tmp[2]]
+            break
+        }
+    }
+    return res
+}
+
+const getFromAcc = async (acc: string, dbPath: string | string[], indexPath?: string | string[]) => {
+    dbPath = Array.isArray(dbPath) ? dbPath : [dbPath]
+    if (!indexPath) {
+        indexPath = []
+        for (const p of dbPath) {
+            const iP = p + '.jsi'
+            if (!fs.existsSync(iP)) {
+                console.log('Writing index: ' + iP);
+                await makeGbffIndex(p)
+            }
+            indexPath.push(iP)
+        }
+    } else {
+        indexPath = Array.isArray(indexPath) ? indexPath : [indexPath]
+        if (indexPath.length !== dbPath.length) throw 'Error'
+    }
+    let i = 0
+    let res
+    for (const p of dbPath) {
+        res = await getOffset(indexPath[i], acc)
+        if (res) break
+        i++
+    }
+    if (res) {
+        const rr = await readOffset(res[0], Number(res[1]), Number(res[2]))
+        res = genbankParser(rr)[0]
+    }
+    return res
+}
+
+export { getFromAcc }

package-lock.json

@@ -0,0 +1,219 @@
+{
+  "name": "gbffparser",
+  "version": "1.0.0",
+  "lockfileVersion": 2,
+  "requires": true,
+  "packages": {
+    "": {
+      "name": "gbffparser",
+      "version": "1.0.0",
+      "license": "ISC",
+      "dependencies": {
+        "@gmod/bgzf-filehandle": "^1.4.2",
+        "asn1": "^0.2.6"
+      },
+      "devDependencies": {
+        "@types/asn1": "^0.2.0",
+        "@types/node": "^17.0.19",
+        "@types/pako": "^1.0.3",
+        "typescript": "^4.5.5"
+      }
+    },
+    "node_modules/@gmod/bgzf-filehandle": {
+      "version": "1.4.2",
+      "resolved": "https://registry.npmjs.org/@gmod/bgzf-filehandle/-/bgzf-filehandle-1.4.2.tgz",
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+      "dependencies": {
+        "es6-promisify": "^7.0.0",
+        "generic-filehandle": "^2.2.1",
+        "long": "^5.1.0",
+        "pako": "^1.0.11"
+      },
+      "engines": {
+        "node": ">=6"
+      }
+    },
+    "node_modules/@gmod/bgzf-filehandle/node_modules/pako": {
+      "version": "1.0.11",
+      "resolved": "https://registry.npmjs.org/pako/-/pako-1.0.11.tgz",
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+    },
+    "node_modules/@types/asn1": {
+      "version": "0.2.0",
+      "resolved": "https://registry.npmjs.org/@types/asn1/-/asn1-0.2.0.tgz",
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+      "dev": true,
+      "dependencies": {
+        "@types/node": "*"
+      }
+    },
+    "node_modules/@types/node": {
+      "version": "17.0.19",
+      "resolved": "https://registry.npmjs.org/@types/node/-/node-17.0.19.tgz",
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+      "dev": true
+    },
+    "node_modules/@types/pako": {
+      "version": "1.0.3",
+      "resolved": "https://registry.npmjs.org/@types/pako/-/pako-1.0.3.tgz",
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+      "dev": true
+    },
+    "node_modules/asn1": {
+      "version": "0.2.6",
+      "resolved": "https://registry.npmjs.org/asn1/-/asn1-0.2.6.tgz",
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+      "dependencies": {
+        "safer-buffer": "~2.1.0"
+      }
+    },
+    "node_modules/es6-promisify": {
+      "version": "7.0.0",
+      "resolved": "https://registry.npmjs.org/es6-promisify/-/es6-promisify-7.0.0.tgz",
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+      "engines": {
+        "node": ">=6"
+      }
+    },
+    "node_modules/file-uri-to-path": {
+      "version": "2.0.0",
+      "resolved": "https://registry.npmjs.org/file-uri-to-path/-/file-uri-to-path-2.0.0.tgz",
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+      "engines": {
+        "node": ">= 6"
+      }
+    },
+    "node_modules/generic-filehandle": {
+      "version": "2.2.2",
+      "resolved": "https://registry.npmjs.org/generic-filehandle/-/generic-filehandle-2.2.2.tgz",
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+      "dependencies": {
+        "es6-promisify": "^6.1.1",
+        "file-uri-to-path": "^2.0.0"
+      },
+      "engines": {
+        "node": ">=6"
+      }
+    },
+    "node_modules/generic-filehandle/node_modules/es6-promisify": {
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+      "resolved": "https://registry.npmjs.org/es6-promisify/-/es6-promisify-6.1.1.tgz",
+      "integrity": "sha512-HBL8I3mIki5C1Cc9QjKUenHtnG0A5/xA8Q/AllRcfiwl2CZFXGK7ddBiCoRwAix4i2KxcQfjtIVcrVbB3vbmwg=="
+    },
+    "node_modules/long": {
+      "version": "5.2.0",
+      "resolved": "https://registry.npmjs.org/long/-/long-5.2.0.tgz",
+      "integrity": "sha512-9RTUNjK60eJbx3uz+TEGF7fUr29ZDxR5QzXcyDpeSfeH28S9ycINflOgOlppit5U+4kNTe83KQnMEerw7GmE8w=="
+    },
+    "node_modules/safer-buffer": {
+      "version": "2.1.2",
+      "resolved": "https://registry.npmjs.org/safer-buffer/-/safer-buffer-2.1.2.tgz",
+      "integrity": "sha512-YZo3K82SD7Riyi0E1EQPojLz7kpepnSQI9IyPbHHg1XXXevb5dJI7tpyN2ADxGcQbHG7vcyRHk0cbwqcQriUtg=="
+    },
+    "node_modules/typescript": {
+      "version": "4.5.5",
+      "resolved": "https://registry.npmjs.org/typescript/-/typescript-4.5.5.tgz",
+      "integrity": "sha512-TCTIul70LyWe6IJWT8QSYeA54WQe8EjQFU4wY52Fasj5UKx88LNYKCgBEHcOMOrFF1rKGbD8v/xcNWVUq9SymA==",
+      "dev": true,
+      "license": "Apache-2.0",
+      "bin": {
+        "tsc": "bin/tsc",
+        "tsserver": "bin/tsserver"
+      },
+      "engines": {
+        "node": ">=4.2.0"
+      }
+    }
+  },
+  "dependencies": {
+    "@gmod/bgzf-filehandle": {
+      "version": "1.4.2",
+      "resolved": "https://registry.npmjs.org/@gmod/bgzf-filehandle/-/bgzf-filehandle-1.4.2.tgz",
+      "integrity": "sha512-eJBFPvH4fqIjVtJtFXw2DKiJYqL/9bOz/cLu5Xn+nGGve2avQ62Bl5aa20SNHSZyoL1QsgY5tGzJwH0IKUtvHg==",
+      "requires": {
+        "es6-promisify": "^7.0.0",
+        "generic-filehandle": "^2.2.1",
+        "long": "^5.1.0",
+        "pako": "^1.0.11"
+      },
+      "dependencies": {
+        "pako": {
+          "version": "1.0.11",
+          "resolved": "https://registry.npmjs.org/pako/-/pako-1.0.11.tgz",
+          "integrity": "sha512-4hLB8Py4zZce5s4yd9XzopqwVv/yGNhV1Bl8NTmCq1763HeK2+EwVTv+leGeL13Dnh2wfbqowVPXCIO0z4taYw=="
+        }
+      }
+    },
+    "@types/asn1": {
+      "version": "0.2.0",
+      "resolved": "https://registry.npmjs.org/@types/asn1/-/asn1-0.2.0.tgz",
+      "integrity": "sha512-5TMxIpYbIA9c1J0hYQjQDX3wr+rTgQEAXaW2BI8ECM8FO53wSW4HFZplTalrKSHuZUc76NtXcePRhwuOHqGD5g==",
+      "dev": true,
+      "requires": {
+        "@types/node": "*"
+      }
+    },
+    "@types/node": {
+      "version": "17.0.19",
+      "resolved": "https://registry.npmjs.org/@types/node/-/node-17.0.19.tgz",
+      "integrity": "sha512-PfeQhvcMR4cPFVuYfBN4ifG7p9c+Dlh3yUZR6k+5yQK7wX3gDgVxBly4/WkBRs9x4dmcy1TVl08SY67wwtEvmA==",
+      "dev": true
+    },
+    "@types/pako": {
+      "version": "1.0.3",
+      "resolved": "https://registry.npmjs.org/@types/pako/-/pako-1.0.3.tgz",
+      "integrity": "sha512-EDxOsHAD5dqjbjEUM1xwa7rpKPFb8ECBE5irONTQU7/OsO3thI5YrNEWSPNMvYmvFM0l/OLQJ6Mgw7PEdXSjhg==",
+      "dev": true
+    },
+    "asn1": {
+      "version": "0.2.6",
+      "resolved": "https://registry.npmjs.org/asn1/-/asn1-0.2.6.tgz",
+      "integrity": "sha512-ix/FxPn0MDjeyJ7i/yoHGFt/EX6LyNbxSEhPPXODPL+KB0VPk86UYfL0lMdy+KCnv+fmvIzySwaK5COwqVbWTQ==",
+      "requires": {
+        "safer-buffer": "~2.1.0"
+      }
+    },
+    "es6-promisify": {
+      "version": "7.0.0",
+      "resolved": "https://registry.npmjs.org/es6-promisify/-/es6-promisify-7.0.0.tgz",
+      "integrity": "sha512-ginqzK3J90Rd4/Yz7qRrqUeIpe3TwSXTPPZtPne7tGBPeAaQiU8qt4fpKApnxHcq1AwtUdHVg5P77x/yrggG8Q=="
+    },
+    "file-uri-to-path": {
+      "version": "2.0.0",
+      "resolved": "https://registry.npmjs.org/file-uri-to-path/-/file-uri-to-path-2.0.0.tgz",
+      "integrity": "sha512-hjPFI8oE/2iQPVe4gbrJ73Pp+Xfub2+WI2LlXDbsaJBwT5wuMh35WNWVYYTpnz895shtwfyutMFLFywpQAFdLg=="
+    },
+    "generic-filehandle": {
+      "version": "2.2.2",
+      "resolved": "https://registry.npmjs.org/generic-filehandle/-/generic-filehandle-2.2.2.tgz",
+      "integrity": "sha512-/YRwruMy53YNTNISJa7YWYVCKqSUzx1v+17xi/bYFX9TjBKNm4otuXZ8eXXeaf4S48ncufU8ihmsvHoi0RzJHA==",
+      "requires": {
+        "es6-promisify": "^6.1.1",
+        "file-uri-to-path": "^2.0.0"
+      },
+      "dependencies": {
+        "es6-promisify": {
+          "version": "6.1.1",
+          "resolved": "https://registry.npmjs.org/es6-promisify/-/es6-promisify-6.1.1.tgz",
+          "integrity": "sha512-HBL8I3mIki5C1Cc9QjKUenHtnG0A5/xA8Q/AllRcfiwl2CZFXGK7ddBiCoRwAix4i2KxcQfjtIVcrVbB3vbmwg=="
+        }
+      }
+    },
+    "long": {
+      "version": "5.2.0",
+      "resolved": "https://registry.npmjs.org/long/-/long-5.2.0.tgz",
+      "integrity": "sha512-9RTUNjK60eJbx3uz+TEGF7fUr29ZDxR5QzXcyDpeSfeH28S9ycINflOgOlppit5U+4kNTe83KQnMEerw7GmE8w=="
+    },
+    "safer-buffer": {
+      "version": "2.1.2",
+      "resolved": "https://registry.npmjs.org/safer-buffer/-/safer-buffer-2.1.2.tgz",
+      "integrity": "sha512-YZo3K82SD7Riyi0E1EQPojLz7kpepnSQI9IyPbHHg1XXXevb5dJI7tpyN2ADxGcQbHG7vcyRHk0cbwqcQriUtg=="
+    },
+    "typescript": {
+      "version": "4.5.5",
+      "resolved": "https://registry.npmjs.org/typescript/-/typescript-4.5.5.tgz",
+      "integrity": "sha512-TCTIul70LyWe6IJWT8QSYeA54WQe8EjQFU4wY52Fasj5UKx88LNYKCgBEHcOMOrFF1rKGbD8v/xcNWVUq9SymA==",
+      "dev": true
+    }
+  }
+}

package.json

@@ -0,0 +1,24 @@
+{
+  "name": "gbffparser",
+  "version": "1.0.0",
+  "description": "",
+  "main": "index.js",
+  "scripts": {
+    "build": "tsc",
+    "test": "echo \"Error: no test specified\" && exit 1"
+  },
+  "keywords": [],
+  "author": "",
+  "license": "ISC",
+  "devDependencies": {
+    "@types/blessed": "^0.1.19",
+    "@types/node": "^17.0.19",
+    "typescript": "^4.5.5"
+  },
+  "dependencies": {
+    "@gmod/bgzf-filehandle": "^1.4.2",
+    "blessed": "^0.1.81",
+    "chalk": "^4.1.2",
+    "genbank-parser": "^1.2.4"
+  }
+}

tsconfig.json

@@ -0,0 +1,101 @@
+{
+  "compilerOptions": {
+    /* Visit https://aka.ms/tsconfig.json to read more about this file */
+
+    /* Projects */
+    // "incremental": true,                              /* Enable incremental compilation */
+    // "composite": true,                                /* Enable constraints that allow a TypeScript project to be used with project references. */
+    // "tsBuildInfoFile": "./",                          /* Specify the folder for .tsbuildinfo incremental compilation files. */
+    // "disableSourceOfProjectReferenceRedirect": true,  /* Disable preferring source files instead of declaration files when referencing composite projects */
+    // "disableSolutionSearching": true,                 /* Opt a project out of multi-project reference checking when editing. */
+    // "disableReferencedProjectLoad": true,             /* Reduce the number of projects loaded automatically by TypeScript. */
+
+    /* Language and Environment */
+    "target": "es2016",                                  /* Set the JavaScript language version for emitted JavaScript and include compatible library declarations. */
+    // "lib": [],                                        /* Specify a set of bundled library declaration files that describe the target runtime environment. */
+    // "jsx": "preserve",                                /* Specify what JSX code is generated. */
+    // "experimentalDecorators": true,                   /* Enable experimental support for TC39 stage 2 draft decorators. */
+    // "emitDecoratorMetadata": true,                    /* Emit design-type metadata for decorated declarations in source files. */
+    // "jsxFactory": "",                                 /* Specify the JSX factory function used when targeting React JSX emit, e.g. 'React.createElement' or 'h' */
+    // "jsxFragmentFactory": "",                         /* Specify the JSX Fragment reference used for fragments when targeting React JSX emit e.g. 'React.Fragment' or 'Fragment'. */
+    // "jsxImportSource": "",                            /* Specify module specifier used to import the JSX factory functions when using `jsx: react-jsx*`.` */
+    // "reactNamespace": "",                             /* Specify the object invoked for `createElement`. This only applies when targeting `react` JSX emit. */
+    // "noLib": true,                                    /* Disable including any library files, including the default lib.d.ts. */
+    // "useDefineForClassFields": true,                  /* Emit ECMAScript-standard-compliant class fields. */
+
+    /* Modules */
+    "module": "commonjs",                                /* Specify what module code is generated. */
+    // "rootDir": "./",                                  /* Specify the root folder within your source files. */
+    // "moduleResolution": "node",                       /* Specify how TypeScript looks up a file from a given module specifier. */
+    // "baseUrl": "./",                                  /* Specify the base directory to resolve non-relative module names. */
+    // "paths": {},                                      /* Specify a set of entries that re-map imports to additional lookup locations. */
+    // "rootDirs": [],                                   /* Allow multiple folders to be treated as one when resolving modules. */
+    // "typeRoots": [],                                  /* Specify multiple folders that act like `./node_modules/@types`. */
+    // "types": [],                                      /* Specify type package names to be included without being referenced in a source file. */
+    // "allowUmdGlobalAccess": true,                     /* Allow accessing UMD globals from modules. */
+    // "resolveJsonModule": true,                        /* Enable importing .json files */
+    // "noResolve": true,                                /* Disallow `import`s, `require`s or `<reference>`s from expanding the number of files TypeScript should add to a project. */
+
+    /* JavaScript Support */
+    // "allowJs": true,                                  /* Allow JavaScript files to be a part of your program. Use the `checkJS` option to get errors from these files. */
+    // "checkJs": true,                                  /* Enable error reporting in type-checked JavaScript files. */
+    // "maxNodeModuleJsDepth": 1,                        /* Specify the maximum folder depth used for checking JavaScript files from `node_modules`. Only applicable with `allowJs`. */
+
+    /* Emit */
+    // "declaration": true,                              /* Generate .d.ts files from TypeScript and JavaScript files in your project. */
+    // "declarationMap": true,                           /* Create sourcemaps for d.ts files. */
+    // "emitDeclarationOnly": true,                      /* Only output d.ts files and not JavaScript files. */
+    // "sourceMap": true,                                /* Create source map files for emitted JavaScript files. */
+    // "outFile": "./",                                  /* Specify a file that bundles all outputs into one JavaScript file. If `declaration` is true, also designates a file that bundles all .d.ts output. */
+    // "outDir": "./",                                   /* Specify an output folder for all emitted files. */
+    // "removeComments": true,                           /* Disable emitting comments. */
+    // "noEmit": true,                                   /* Disable emitting files from a compilation. */
+    // "importHelpers": true,                            /* Allow importing helper functions from tslib once per project, instead of including them per-file. */
+    // "importsNotUsedAsValues": "remove",               /* Specify emit/checking behavior for imports that are only used for types */
+    // "downlevelIteration": true,                       /* Emit more compliant, but verbose and less performant JavaScript for iteration. */
+    // "sourceRoot": "",                                 /* Specify the root path for debuggers to find the reference source code. */
+    // "mapRoot": "",                                    /* Specify the location where debugger should locate map files instead of generated locations. */
+    // "inlineSourceMap": true,                          /* Include sourcemap files inside the emitted JavaScript. */
+    // "inlineSources": true,                            /* Include source code in the sourcemaps inside the emitted JavaScript. */
+    // "emitBOM": true,                                  /* Emit a UTF-8 Byte Order Mark (BOM) in the beginning of output files. */
+    // "newLine": "crlf",                                /* Set the newline character for emitting files. */
+    // "stripInternal": true,                            /* Disable emitting declarations that have `@internal` in their JSDoc comments. */
+    // "noEmitHelpers": true,                            /* Disable generating custom helper functions like `__extends` in compiled output. */
+    // "noEmitOnError": true,                            /* Disable emitting files if any type checking errors are reported. */
+    // "preserveConstEnums": true,                       /* Disable erasing `const enum` declarations in generated code. */
+    // "declarationDir": "./",                           /* Specify the output directory for generated declaration files. */
+    // "preserveValueImports": true,                     /* Preserve unused imported values in the JavaScript output that would otherwise be removed. */
+
+    /* Interop Constraints */
+    // "isolatedModules": true,                          /* Ensure that each file can be safely transpiled without relying on other imports. */
+    // "allowSyntheticDefaultImports": true,             /* Allow 'import x from y' when a module doesn't have a default export. */
+    "esModuleInterop": true,                             /* Emit additional JavaScript to ease support for importing CommonJS modules. This enables `allowSyntheticDefaultImports` for type compatibility. */
+    // "preserveSymlinks": true,                         /* Disable resolving symlinks to their realpath. This correlates to the same flag in node. */
+    "forceConsistentCasingInFileNames": true,            /* Ensure that casing is correct in imports. */
+
+    /* Type Checking */
+    "strict": true,                                      /* Enable all strict type-checking options. */
+    // "noImplicitAny": true,                            /* Enable error reporting for expressions and declarations with an implied `any` type.. */
+    // "strictNullChecks": true,                         /* When type checking, take into account `null` and `undefined`. */
+    // "strictFunctionTypes": true,                      /* When assigning functions, check to ensure parameters and the return values are subtype-compatible. */
+    // "strictBindCallApply": true,                      /* Check that the arguments for `bind`, `call`, and `apply` methods match the original function. */
+    // "strictPropertyInitialization": true,             /* Check for class properties that are declared but not set in the constructor. */
+    // "noImplicitThis": true,                           /* Enable error reporting when `this` is given the type `any`. */
+    // "useUnknownInCatchVariables": true,               /* Type catch clause variables as 'unknown' instead of 'any'. */
+    // "alwaysStrict": true,                             /* Ensure 'use strict' is always emitted. */
+    // "noUnusedLocals": true,                           /* Enable error reporting when a local variables aren't read. */
+    // "noUnusedParameters": true,                       /* Raise an error when a function parameter isn't read */
+    // "exactOptionalPropertyTypes": true,               /* Interpret optional property types as written, rather than adding 'undefined'. */
+    // "noImplicitReturns": true,                        /* Enable error reporting for codepaths that do not explicitly return in a function. */
+    // "noFallthroughCasesInSwitch": true,               /* Enable error reporting for fallthrough cases in switch statements. */
+    // "noUncheckedIndexedAccess": true,                 /* Include 'undefined' in index signature results */
+    // "noImplicitOverride": true,                       /* Ensure overriding members in derived classes are marked with an override modifier. */
+    // "noPropertyAccessFromIndexSignature": true,       /* Enforces using indexed accessors for keys declared using an indexed type */
+    // "allowUnusedLabels": true,                        /* Disable error reporting for unused labels. */
+    // "allowUnreachableCode": true,                     /* Disable error reporting for unreachable code. */
+
+    /* Completeness */
+    // "skipDefaultLibCheck": true,                      /* Skip type checking .d.ts files that are included with TypeScript. */
+    "skipLibCheck": true                                 /* Skip type checking all .d.ts files. */
+  }
+}

yarn-error.log

@@ -0,0 +1,307 @@
+Arguments: 
+  /usr/local/bin/node /usr/local/bin/yarn add js-asn1
+
+PATH: 
+  /usr/bin:/home/thomas/perl5/bin:/home/thomas/.local/bin:/home/thomas/.local/bin:/usr/bin:/home/thomas/perl5/bin:/home/thomas/miniconda3/bin:/home/thomas/miniconda3/condabin:/home/thomas/.local/bin:/home/thomas/.local/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/snap/bin:/snap/bin:/usr/local/go/bin:/opt/spark/bin:/opt/spark/sbin:/home/thomas/miniconda3/bin:/home/thomas/miniconda3/condabin:/home/thomas/.local/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/snap/bin:/bin:/sbin:/usr/local/go/bin:/home/thomas/go/bin:/usr/local/go/bin:/opt/spark/bin:/opt/spark/sbin:/home/thomas/miniconda3/bin:/home/thomas/miniconda3/condabin:/opt/spark/bin:/opt/spark/sbin:/home/thomas/miniconda3/bin:/home/thomas/miniconda3/condabin:/home/thomas/.local/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/snap/bin:/bin:/sbin:/usr/local/go/bin:/home/thomas/go/bin:/opt/spark/bin:/opt/spark/sbin:/home/thomas/miniconda3/bin:/home/thomas/miniconda3/condabin
+
+Yarn version: 
+  1.22.17
+
+Node version: 
+  16.13.1
+
+Platform: 
+  linux x64
+
+Trace: 
+  Error: https://registry.yarnpkg.com/js-asn1: Not found
+      at Request.params.callback [as _callback] (/usr/local/lib/node_modules/yarn/lib/cli.js:67029:18)
+      at Request.self.callback (/usr/local/lib/node_modules/yarn/lib/cli.js:140883:22)
+      at Request.emit (node:events:390:28)
+      at Request.<anonymous> (/usr/local/lib/node_modules/yarn/lib/cli.js:141855:10)
+      at Request.emit (node:events:390:28)
+      at IncomingMessage.<anonymous> (/usr/local/lib/node_modules/yarn/lib/cli.js:141777:12)
+      at Object.onceWrapper (node:events:509:28)
+      at IncomingMessage.emit (node:events:402:35)
+      at endReadableNT (node:internal/streams/readable:1343:12)
+      at processTicksAndRejections (node:internal/process/task_queues:83:21)
+
+npm manifest: 
+  {
+    "name": "gbffparser",
+    "version": "1.0.0",
+    "description": "",
+    "main": "index.js",
+    "scripts": {
+      "build": "tsc",
+      "test": "echo \"Error: no test specified\" && exit 1"
+    },
+    "keywords": [],
+    "author": "",
+    "license": "ISC",
+    "devDependencies": {
+      "@types/asn1": "^0.2.0",
+      "@types/node": "^17.0.19",
+      "@types/pako": "^1.0.3",
+      "typescript": "^4.5.5"
+    },
+    "dependencies": {
+      "@gmod/bgzf-filehandle": "^1.4.2",
+      "@lapo/asn1js": "^1.2.3",
+      "asn1": "^0.2.6",
+      "parse-asn1": "^5.1.6"
+    }
+  }
+
+yarn manifest: 
+  No manifest
+
+Lockfile: 
+  # THIS IS AN AUTOGENERATED FILE. DO NOT EDIT THIS FILE DIRECTLY.
+  # yarn lockfile v1
+  
+  
+  "@gmod/bgzf-filehandle@^1.4.2":
+    version "1.4.2"
+    resolved "https://registry.npmjs.org/@gmod/bgzf-filehandle/-/bgzf-filehandle-1.4.2.tgz"
+    integrity sha512-eJBFPvH4fqIjVtJtFXw2DKiJYqL/9bOz/cLu5Xn+nGGve2avQ62Bl5aa20SNHSZyoL1QsgY5tGzJwH0IKUtvHg==
+    dependencies:
+      es6-promisify "^7.0.0"
+      generic-filehandle "^2.2.1"
+      long "^5.1.0"
+      pako "^1.0.11"
+  
+  "@lapo/asn1js@^1.2.3":
+    version "1.2.3"
+    resolved "https://registry.yarnpkg.com/@lapo/asn1js/-/asn1js-1.2.3.tgz#a5b15a769cb31d550ccf9eed3725ffd83f47026b"
+    integrity sha512-6dWV0syRWrnZAcbygq/LRd9alZ5NIJVFTU4nmlbwJSigGh2O49nFFURcDP1KeKoxsXmxGfAPGj4soX1mrV2uAQ==
+  
+  "@types/asn1@^0.2.0":
+    version "0.2.0"
+    resolved "https://registry.npmjs.org/@types/asn1/-/asn1-0.2.0.tgz"
+    integrity sha512-5TMxIpYbIA9c1J0hYQjQDX3wr+rTgQEAXaW2BI8ECM8FO53wSW4HFZplTalrKSHuZUc76NtXcePRhwuOHqGD5g==
+    dependencies:
+      "@types/node" "*"
+  
+  "@types/node@*", "@types/node@^17.0.19":
+    version "17.0.19"
+    resolved "https://registry.npmjs.org/@types/node/-/node-17.0.19.tgz"
+    integrity sha512-PfeQhvcMR4cPFVuYfBN4ifG7p9c+Dlh3yUZR6k+5yQK7wX3gDgVxBly4/WkBRs9x4dmcy1TVl08SY67wwtEvmA==
+  
+  "@types/pako@^1.0.3":
+    version "1.0.3"
+    resolved "https://registry.npmjs.org/@types/pako/-/pako-1.0.3.tgz"
+    integrity sha512-EDxOsHAD5dqjbjEUM1xwa7rpKPFb8ECBE5irONTQU7/OsO3thI5YrNEWSPNMvYmvFM0l/OLQJ6Mgw7PEdXSjhg==
+  
+  asn1.js@^5.2.0:
+    version "5.4.1"
+    resolved "https://registry.yarnpkg.com/asn1.js/-/asn1.js-5.4.1.tgz#11a980b84ebb91781ce35b0fdc2ee294e3783f07"
+    integrity sha512-+I//4cYPccV8LdmBLiX8CYvf9Sp3vQsrqu2QNXRcrbiWvcx/UdlFiqUJJzxRQxgsZmvhXhn4cSKeSmoFjVdupA==
+    dependencies:
+      bn.js "^4.0.0"
+      inherits "^2.0.1"
+      minimalistic-assert "^1.0.0"
+      safer-buffer "^2.1.0"
+  
+  asn1@^0.2.6:
+    version "0.2.6"
+    resolved "https://registry.yarnpkg.com/asn1/-/asn1-0.2.6.tgz#0d3a7bb6e64e02a90c0303b31f292868ea09a08d"
+    integrity sha512-ix/FxPn0MDjeyJ7i/yoHGFt/EX6LyNbxSEhPPXODPL+KB0VPk86UYfL0lMdy+KCnv+fmvIzySwaK5COwqVbWTQ==
+    dependencies:
+      safer-buffer "~2.1.0"
+  
+  bn.js@^4.0.0:
+    version "4.12.0"
+    resolved "https://registry.yarnpkg.com/bn.js/-/bn.js-4.12.0.tgz#775b3f278efbb9718eec7361f483fb36fbbfea88"
+    integrity sha512-c98Bf3tPniI+scsdk237ku1Dc3ujXQTSgyiPUDEOe7tRkhrqridvh8klBv0HCEso1OLOYcHuCv/cS6DNxKH+ZA==
+  
+  browserify-aes@^1.0.0:
+    version "1.2.0"
+    resolved "https://registry.yarnpkg.com/browserify-aes/-/browserify-aes-1.2.0.tgz#326734642f403dabc3003209853bb70ad428ef48"
+    integrity sha512-+7CHXqGuspUn/Sl5aO7Ea0xWGAtETPXNSAjHo48JfLdPWcMng33Xe4znFvQweqc/uzk5zSOI3H52CYnjCfb5hA==
+    dependencies:
+      buffer-xor "^1.0.3"
+      cipher-base "^1.0.0"
+      create-hash "^1.1.0"
+      evp_bytestokey "^1.0.3"
+      inherits "^2.0.1"
+      safe-buffer "^5.0.1"
+  
+  buffer-xor@^1.0.3:
+    version "1.0.3"
+    resolved "https://registry.yarnpkg.com/buffer-xor/-/buffer-xor-1.0.3.tgz#26e61ed1422fb70dd42e6e36729ed51d855fe8d9"
+    integrity sha1-JuYe0UIvtw3ULm42cp7VHYVf6Nk=
+  
+  cipher-base@^1.0.0, cipher-base@^1.0.1, cipher-base@^1.0.3:
+    version "1.0.4"
+    resolved "https://registry.yarnpkg.com/cipher-base/-/cipher-base-1.0.4.tgz#8760e4ecc272f4c363532f926d874aae2c1397de"
+    integrity sha512-Kkht5ye6ZGmwv40uUDZztayT2ThLQGfnj/T71N/XzeZeo3nf8foyW7zGTsPYkEya3m5f3cAypH+qe7YOrM1U2Q==
+    dependencies:
+      inherits "^2.0.1"
+      safe-buffer "^5.0.1"
+  
+  create-hash@^1.1.0, create-hash@^1.1.2:
+    version "1.2.0"
+    resolved "https://registry.yarnpkg.com/create-hash/-/create-hash-1.2.0.tgz#889078af11a63756bcfb59bd221996be3a9ef196"
+    integrity sha512-z00bCGNHDG8mHAkP7CtT1qVu+bFQUPjYq/4Iv3C3kWjTFV10zIjfSoeqXo9Asws8gwSHDGj/hl2u4OGIjapeCg==
+    dependencies:
+      cipher-base "^1.0.1"
+      inherits "^2.0.1"
+      md5.js "^1.3.4"
+      ripemd160 "^2.0.1"
+      sha.js "^2.4.0"
+  
+  create-hmac@^1.1.4:
+    version "1.1.7"
+    resolved "https://registry.yarnpkg.com/create-hmac/-/create-hmac-1.1.7.tgz#69170c78b3ab957147b2b8b04572e47ead2243ff"
+    integrity sha512-MJG9liiZ+ogc4TzUwuvbER1JRdgvUFSB5+VR/g5h82fGaIRWMWddtKBHi7/sVhfjQZ6SehlyhvQYrcYkaUIpLg==
+    dependencies:
+      cipher-base "^1.0.3"
+      create-hash "^1.1.0"
+      inherits "^2.0.1"
+      ripemd160 "^2.0.0"
+      safe-buffer "^5.0.1"
+      sha.js "^2.4.8"
+  
+  es6-promisify@^6.1.1:
+    version "6.1.1"
+    resolved "https://registry.npmjs.org/es6-promisify/-/es6-promisify-6.1.1.tgz"
+    integrity sha512-HBL8I3mIki5C1Cc9QjKUenHtnG0A5/xA8Q/AllRcfiwl2CZFXGK7ddBiCoRwAix4i2KxcQfjtIVcrVbB3vbmwg==
+  
+  es6-promisify@^7.0.0:
+    version "7.0.0"
+    resolved "https://registry.npmjs.org/es6-promisify/-/es6-promisify-7.0.0.tgz"
+    integrity sha512-ginqzK3J90Rd4/Yz7qRrqUeIpe3TwSXTPPZtPne7tGBPeAaQiU8qt4fpKApnxHcq1AwtUdHVg5P77x/yrggG8Q==
+  
+  evp_bytestokey@^1.0.0, evp_bytestokey@^1.0.3:
+    version "1.0.3"
+    resolved "https://registry.yarnpkg.com/evp_bytestokey/-/evp_bytestokey-1.0.3.tgz#7fcbdb198dc71959432efe13842684e0525acb02"
+    integrity sha512-/f2Go4TognH/KvCISP7OUsHn85hT9nUkxxA9BEWxFn+Oj9o8ZNLm/40hdlgSLyuOimsrTKLUMEorQexp/aPQeA==
+    dependencies:
+      md5.js "^1.3.4"
+      safe-buffer "^5.1.1"
+  
+  file-uri-to-path@^2.0.0:
+    version "2.0.0"
+    resolved "https://registry.npmjs.org/file-uri-to-path/-/file-uri-to-path-2.0.0.tgz"
+    integrity sha512-hjPFI8oE/2iQPVe4gbrJ73Pp+Xfub2+WI2LlXDbsaJBwT5wuMh35WNWVYYTpnz895shtwfyutMFLFywpQAFdLg==
+  
+  generic-filehandle@^2.2.1:
+    version "2.2.2"
+    resolved "https://registry.npmjs.org/generic-filehandle/-/generic-filehandle-2.2.2.tgz"
+    integrity sha512-/YRwruMy53YNTNISJa7YWYVCKqSUzx1v+17xi/bYFX9TjBKNm4otuXZ8eXXeaf4S48ncufU8ihmsvHoi0RzJHA==
+    dependencies:
+      es6-promisify "^6.1.1"
+      file-uri-to-path "^2.0.0"
+  
+  hash-base@^3.0.0:
+    version "3.1.0"
+    resolved "https://registry.yarnpkg.com/hash-base/-/hash-base-3.1.0.tgz#55c381d9e06e1d2997a883b4a3fddfe7f0d3af33"
+    integrity sha512-1nmYp/rhMDiE7AYkDw+lLwlAzz0AntGIe51F3RfFfEqyQ3feY2eI/NcwC6umIQVOASPMsWJLJScWKSSvzL9IVA==
+    dependencies:
+      inherits "^2.0.4"
+      readable-stream "^3.6.0"
+      safe-buffer "^5.2.0"
+  
+  inherits@^2.0.1, inherits@^2.0.3, inherits@^2.0.4:
+    version "2.0.4"
+    resolved "https://registry.yarnpkg.com/inherits/-/inherits-2.0.4.tgz#0fa2c64f932917c3433a0ded55363aae37416b7c"
+    integrity sha512-k/vGaX4/Yla3WzyMCvTQOXYeIHvqOKtnqBduzTHpzpQZzAskKMhZ2K+EnBiSM9zGSoIFeMpXKxa4dYeZIQqewQ==
+  
+  long@^5.1.0:
+    version "5.2.0"
+    resolved "https://registry.npmjs.org/long/-/long-5.2.0.tgz"
+    integrity sha512-9RTUNjK60eJbx3uz+TEGF7fUr29ZDxR5QzXcyDpeSfeH28S9ycINflOgOlppit5U+4kNTe83KQnMEerw7GmE8w==
+  
+  md5.js@^1.3.4:
+    version "1.3.5"
+    resolved "https://registry.yarnpkg.com/md5.js/-/md5.js-1.3.5.tgz#b5d07b8e3216e3e27cd728d72f70d1e6a342005f"
+    integrity sha512-xitP+WxNPcTTOgnTJcrhM0xvdPepipPSf3I8EIpGKeFLjt3PlJLIDG3u8EX53ZIubkb+5U2+3rELYpEhHhzdkg==
+    dependencies:
+      hash-base "^3.0.0"
+      inherits "^2.0.1"
+      safe-buffer "^5.1.2"
+  
+  minimalistic-assert@^1.0.0:
+    version "1.0.1"
+    resolved "https://registry.yarnpkg.com/minimalistic-assert/-/minimalistic-assert-1.0.1.tgz#2e194de044626d4a10e7f7fbc00ce73e83e4d5c7"
+    integrity sha512-UtJcAD4yEaGtjPezWuO9wC4nwUnVH/8/Im3yEHQP4b67cXlD/Qr9hdITCU1xDbSEXg2XKNaP8jsReV7vQd00/A==
+  
+  pako@^1.0.11:
+    version "1.0.11"
+    resolved "https://registry.npmjs.org/pako/-/pako-1.0.11.tgz"
+    integrity sha512-4hLB8Py4zZce5s4yd9XzopqwVv/yGNhV1Bl8NTmCq1763HeK2+EwVTv+leGeL13Dnh2wfbqowVPXCIO0z4taYw==
+  
+  parse-asn1@^5.1.6:
+    version "5.1.6"
+    resolved "https://registry.yarnpkg.com/parse-asn1/-/parse-asn1-5.1.6.tgz#385080a3ec13cb62a62d39409cb3e88844cdaed4"
+    integrity sha512-RnZRo1EPU6JBnra2vGHj0yhp6ebyjBZpmUCLHWiFhxlzvBCCpAuZ7elsBp1PVAbQN0/04VD/19rfzlBSwLstMw==
+    dependencies:
+      asn1.js "^5.2.0"
+      browserify-aes "^1.0.0"
+      evp_bytestokey "^1.0.0"
+      pbkdf2 "^3.0.3"
+      safe-buffer "^5.1.1"
+  
+  pbkdf2@^3.0.3:
+    version "3.1.2"
+    resolved "https://registry.yarnpkg.com/pbkdf2/-/pbkdf2-3.1.2.tgz#dd822aa0887580e52f1a039dc3eda108efae3075"
+    integrity sha512-iuh7L6jA7JEGu2WxDwtQP1ddOpaJNC4KlDEFfdQajSGgGPNi4OyDc2R7QnbY2bR9QjBVGwgvTdNJZoE7RaxUMA==
+    dependencies:
+      create-hash "^1.1.2"
+      create-hmac "^1.1.4"
+      ripemd160 "^2.0.1"
+      safe-buffer "^5.0.1"
+      sha.js "^2.4.8"
+  
+  readable-stream@^3.6.0:
+    version "3.6.0"
+    resolved "https://registry.yarnpkg.com/readable-stream/-/readable-stream-3.6.0.tgz#337bbda3adc0706bd3e024426a286d4b4b2c9198"
+    integrity sha512-BViHy7LKeTz4oNnkcLJ+lVSL6vpiFeX6/d3oSH8zCW7UxP2onchk+vTGB143xuFjHS3deTgkKoXXymXqymiIdA==
+    dependencies:
+      inherits "^2.0.3"
+      string_decoder "^1.1.1"
+      util-deprecate "^1.0.1"
+  
+  ripemd160@^2.0.0, ripemd160@^2.0.1:
+    version "2.0.2"
+    resolved "https://registry.yarnpkg.com/ripemd160/-/ripemd160-2.0.2.tgz#a1c1a6f624751577ba5d07914cbc92850585890c"
+    integrity sha512-ii4iagi25WusVoiC4B4lq7pbXfAp3D9v5CwfkY33vffw2+pkDjY1D8GaN7spsxvCSx8dkPqOZCEZyfxcmJG2IA==
+    dependencies:
+      hash-base "^3.0.0"
+      inherits "^2.0.1"
+  
+  safe-buffer@^5.0.1, safe-buffer@^5.1.1, safe-buffer@^5.1.2, safe-buffer@^5.2.0, safe-buffer@~5.2.0:
+    version "5.2.1"
+    resolved "https://registry.yarnpkg.com/safe-buffer/-/safe-buffer-5.2.1.tgz#1eaf9fa9bdb1fdd4ec75f58f9cdb4e6b7827eec6"
+    integrity sha512-rp3So07KcdmmKbGvgaNxQSJr7bGVSVk5S9Eq1F+ppbRo70+YeaDxkw5Dd8NPN+GD6bjnYm2VuPuCXmpuYvmCXQ==
+  
+  safer-buffer@^2.1.0, safer-buffer@~2.1.0:
+    version "2.1.2"
+    resolved "https://registry.npmjs.org/safer-buffer/-/safer-buffer-2.1.2.tgz"
+    integrity sha512-YZo3K82SD7Riyi0E1EQPojLz7kpepnSQI9IyPbHHg1XXXevb5dJI7tpyN2ADxGcQbHG7vcyRHk0cbwqcQriUtg==
+  
+  sha.js@^2.4.0, sha.js@^2.4.8:
+    version "2.4.11"
+    resolved "https://registry.yarnpkg.com/sha.js/-/sha.js-2.4.11.tgz#37a5cf0b81ecbc6943de109ba2960d1b26584ae7"
+    integrity sha512-QMEp5B7cftE7APOjk5Y6xgrbWu+WkLVQwk8JNjZ8nKRciZaByEW6MubieAiToS7+dwvrjGhH8jRXz3MVd0AYqQ==
+    dependencies:
+      inherits "^2.0.1"
+      safe-buffer "^5.0.1"
+  
+  string_decoder@^1.1.1:
+    version "1.3.0"
+    resolved "https://registry.yarnpkg.com/string_decoder/-/string_decoder-1.3.0.tgz#42f114594a46cf1a8e30b0a84f56c78c3edac21e"
+    integrity sha512-hkRX8U1WjJFd8LsDJ2yQ/wWWxaopEsABU1XfkM8A+j0+85JAGppt16cr1Whg6KIbb4okU6Mql6BOj+uup/wKeA==
+    dependencies:
+      safe-buffer "~5.2.0"
+  
+  typescript@^4.5.5:
+    version "4.5.5"
+    resolved "https://registry.npmjs.org/typescript/-/typescript-4.5.5.tgz"
+    integrity sha512-TCTIul70LyWe6IJWT8QSYeA54WQe8EjQFU4wY52Fasj5UKx88LNYKCgBEHcOMOrFF1rKGbD8v/xcNWVUq9SymA==
+  
+  util-deprecate@^1.0.1:
+    version "1.0.2"
+    resolved "https://registry.yarnpkg.com/util-deprecate/-/util-deprecate-1.0.2.tgz#450d4dc9fa70de732762fbd2d4a28981419a0ccf"
+    integrity sha1-RQ1Nyfpw3nMnYvvS1KKJgUGaDM8=

yarn.lock

@@ -0,0 +1,117 @@
+# THIS IS AN AUTOGENERATED FILE. DO NOT EDIT THIS FILE DIRECTLY.
+# yarn lockfile v1
+
+
+"@gmod/bgzf-filehandle@^1.4.2":
+  version "1.4.2"
+  resolved "https://registry.npmjs.org/@gmod/bgzf-filehandle/-/bgzf-filehandle-1.4.2.tgz"
+  integrity sha512-eJBFPvH4fqIjVtJtFXw2DKiJYqL/9bOz/cLu5Xn+nGGve2avQ62Bl5aa20SNHSZyoL1QsgY5tGzJwH0IKUtvHg==
+  dependencies:
+    es6-promisify "^7.0.0"
+    generic-filehandle "^2.2.1"
+    long "^5.1.0"
+    pako "^1.0.11"
+
+"@types/blessed@^0.1.19":
+  version "0.1.19"
+  resolved "https://registry.yarnpkg.com/@types/blessed/-/blessed-0.1.19.tgz#aafb3ebad6036fbe63ba28285ca2bead624c3d14"
+  integrity sha512-r4qnseYWBsi/kxo5AAlCS22EnTXFbGpnvuXUubJikVeRnYB3e5HwV3NtcwJ0Sk5KOGaLvo9Rtwb8hzxfbqbQPg==
+  dependencies:
+    "@types/node" "*"
+
+"@types/node@*":
+  version "17.0.21"
+  resolved "https://registry.yarnpkg.com/@types/node/-/node-17.0.21.tgz#864b987c0c68d07b4345845c3e63b75edd143644"
+  integrity sha512-DBZCJbhII3r90XbQxI8Y9IjjiiOGlZ0Hr32omXIZvwwZ7p4DMMXGrKXVyPfuoBOri9XNtL0UK69jYIBIsRX3QQ==
+
+"@types/node@^17.0.19":
+  version "17.0.19"
+  resolved "https://registry.npmjs.org/@types/node/-/node-17.0.19.tgz"
+  integrity sha512-PfeQhvcMR4cPFVuYfBN4ifG7p9c+Dlh3yUZR6k+5yQK7wX3gDgVxBly4/WkBRs9x4dmcy1TVl08SY67wwtEvmA==
+
+ansi-styles@^4.1.0:
+  version "4.3.0"
+  resolved "https://registry.yarnpkg.com/ansi-styles/-/ansi-styles-4.3.0.tgz#edd803628ae71c04c85ae7a0906edad34b648937"
+  integrity sha512-zbB9rCJAT1rbjiVDb2hqKFHNYLxgtk8NURxZ3IZwD3F6NtxbXZQCnnSi1Lkx+IDohdPlFp222wVALIheZJQSEg==
+  dependencies:
+    color-convert "^2.0.1"
+
+blessed@^0.1.81:
+  version "0.1.81"
+  resolved "https://registry.yarnpkg.com/blessed/-/blessed-0.1.81.tgz#f962d687ec2c369570ae71af843256e6d0ca1129"
+  integrity sha1-+WLWh+wsNpVwrnGvhDJW5tDKESk=
+
+chalk@^4.1.2:
+  version "4.1.2"
+  resolved "https://registry.yarnpkg.com/chalk/-/chalk-4.1.2.tgz#aac4e2b7734a740867aeb16bf02aad556a1e7a01"
+  integrity sha512-oKnbhFyRIXpUuez8iBMmyEa4nbj4IOQyuhc/wy9kY7/WVPcwIO9VA668Pu8RkO7+0G76SLROeyw9CpQ061i4mA==
+  dependencies:
+    ansi-styles "^4.1.0"
+    supports-color "^7.1.0"
+
+color-convert@^2.0.1:
+  version "2.0.1"
+  resolved "https://registry.yarnpkg.com/color-convert/-/color-convert-2.0.1.tgz#72d3a68d598c9bdb3af2ad1e84f21d896abd4de3"
+  integrity sha512-RRECPsj7iu/xb5oKYcsFHSppFNnsj/52OVTRKb4zP5onXwVF3zVmmToNcOfGC+CRDpfK/U584fMg38ZHCaElKQ==
+  dependencies:
+    color-name "~1.1.4"
+
+color-name@~1.1.4:
+  version "1.1.4"
+  resolved "https://registry.yarnpkg.com/color-name/-/color-name-1.1.4.tgz#c2a09a87acbde69543de6f63fa3995c826c536a2"
+  integrity sha512-dOy+3AuW3a2wNbZHIuMZpTcgjGuLU/uBL/ubcZF9OXbDo8ff4O8yVp5Bf0efS8uEoYo5q4Fx7dY9OgQGXgAsQA==
+
+es6-promisify@^6.1.1:
+  version "6.1.1"
+  resolved "https://registry.npmjs.org/es6-promisify/-/es6-promisify-6.1.1.tgz"
+  integrity sha512-HBL8I3mIki5C1Cc9QjKUenHtnG0A5/xA8Q/AllRcfiwl2CZFXGK7ddBiCoRwAix4i2KxcQfjtIVcrVbB3vbmwg==
+
+es6-promisify@^7.0.0:
+  version "7.0.0"
+  resolved "https://registry.npmjs.org/es6-promisify/-/es6-promisify-7.0.0.tgz"
+  integrity sha512-ginqzK3J90Rd4/Yz7qRrqUeIpe3TwSXTPPZtPne7tGBPeAaQiU8qt4fpKApnxHcq1AwtUdHVg5P77x/yrggG8Q==
+
+file-uri-to-path@^2.0.0:
+  version "2.0.0"
+  resolved "https://registry.npmjs.org/file-uri-to-path/-/file-uri-to-path-2.0.0.tgz"
+  integrity sha512-hjPFI8oE/2iQPVe4gbrJ73Pp+Xfub2+WI2LlXDbsaJBwT5wuMh35WNWVYYTpnz895shtwfyutMFLFywpQAFdLg==
+
+genbank-parser@^1.2.4:
+  version "1.2.4"
+  resolved "https://registry.yarnpkg.com/genbank-parser/-/genbank-parser-1.2.4.tgz#ee2f9c32f66875024af0c09ee0ec5e10fb231802"
+  integrity sha512-r3pTgKHZx/rol90v2cezrNhfMhq3yHWCnBYyETNIJkvnJk+cwx/D/ZVgAy1SX8zwtnfvYQmFbqlpbh2f4t0h2w==
+
+generic-filehandle@^2.2.1:
+  version "2.2.2"
+  resolved "https://registry.npmjs.org/generic-filehandle/-/generic-filehandle-2.2.2.tgz"
+  integrity sha512-/YRwruMy53YNTNISJa7YWYVCKqSUzx1v+17xi/bYFX9TjBKNm4otuXZ8eXXeaf4S48ncufU8ihmsvHoi0RzJHA==
+  dependencies:
+    es6-promisify "^6.1.1"
+    file-uri-to-path "^2.0.0"
+
+has-flag@^4.0.0:
+  version "4.0.0"
+  resolved "https://registry.yarnpkg.com/has-flag/-/has-flag-4.0.0.tgz#944771fd9c81c81265c4d6941860da06bb59479b"
+  integrity sha512-EykJT/Q1KjTWctppgIAgfSO0tKVuZUjhgMr17kqTumMl6Afv3EISleU7qZUzoXDFTAHTDC4NOoG/ZxU3EvlMPQ==
+
+long@^5.1.0:
+  version "5.2.0"
+  resolved "https://registry.npmjs.org/long/-/long-5.2.0.tgz"
+  integrity sha512-9RTUNjK60eJbx3uz+TEGF7fUr29ZDxR5QzXcyDpeSfeH28S9ycINflOgOlppit5U+4kNTe83KQnMEerw7GmE8w==
+
+pako@^1.0.11:
+  version "1.0.11"
+  resolved "https://registry.npmjs.org/pako/-/pako-1.0.11.tgz"
+  integrity sha512-4hLB8Py4zZce5s4yd9XzopqwVv/yGNhV1Bl8NTmCq1763HeK2+EwVTv+leGeL13Dnh2wfbqowVPXCIO0z4taYw==
+
+supports-color@^7.1.0:
+  version "7.2.0"
+  resolved "https://registry.yarnpkg.com/supports-color/-/supports-color-7.2.0.tgz#1b7dcdcb32b8138801b3e478ba6a51caa89648da"
+  integrity sha512-qpCAvRl9stuOHveKsn7HncJRvv501qIacKzQlO/+Lwxc9+0q2wLyv4Dfvt80/DPn2pqOBsJdDiogXGR9+OvwRw==
+  dependencies:
+    has-flag "^4.0.0"
+
+typescript@^4.5.5:
+  version "4.5.5"
+  resolved "https://registry.npmjs.org/typescript/-/typescript-4.5.5.tgz"
+  integrity sha512-TCTIul70LyWe6IJWT8QSYeA54WQe8EjQFU4wY52Fasj5UKx88LNYKCgBEHcOMOrFF1rKGbD8v/xcNWVUq9SymA==