@gmod/tabix 1.5.14 → 1.5.15

package/esm/tabixIndexedFile.d.ts

@@ -11,41 +11,58 @@ interface GetLinesOpts {
 export default class TabixIndexedFile {
     private filehandle;
     private index;
-    private chunkSizeLimit;
     private yieldTime;
     private renameRefSeq;
     private chunkCache;
     /**
      * @param {object} args
+     *
      * @param {string} [args.path]
+     *
      * @param {filehandle} [args.filehandle]
+     *
      * @param {string} [args.tbiPath]
+     *
      * @param {filehandle} [args.tbiFilehandle]
+     *
      * @param {string} [args.csiPath]
+     *
      * @param {filehandle} [args.csiFilehandle]
-     * @param {number} [args.yieldTime] yield to main thread after N milliseconds if reading features is taking a long time to avoid hanging main thread
-     * @param {function} [args.renameRefSeqs] optional function with sig `string => string` to transform
-     * reference sequence names for the purpose of indexing and querying. note that the data that is returned is
-     * not altered, just the names of the reference sequences that are used for querying.
+     *
+     * @param {number} [args.yieldTime] yield to main thread after N milliseconds
+     * if reading features is taking a long time to avoid hanging main thread
+     *
+     * @param {function} [args.renameRefSeqs] optional function with sig `string
+     * => string` to transform reference sequence names for the purpose of
+     * indexing and querying. note that the data that is returned is not altered,
+     * just the names of the reference sequences that are used for querying.
      */
-    constructor({ path, filehandle, tbiPath, tbiFilehandle, csiPath, csiFilehandle, yieldTime, chunkSizeLimit, renameRefSeqs, chunkCacheSize, }: {
+    constructor({ path, filehandle, url, tbiPath, tbiUrl, tbiFilehandle, csiPath, csiUrl, csiFilehandle, yieldTime, renameRefSeqs, chunkCacheSize, }: {
         path?: string;
         filehandle?: GenericFilehandle;
+        url?: string;
         tbiPath?: string;
+        tbiUrl?: string;
         tbiFilehandle?: GenericFilehandle;
         csiPath?: string;
+        csiUrl?: string;
         csiFilehandle?: GenericFilehandle;
         yieldTime?: number;
-        chunkSizeLimit?: number;
         renameRefSeqs?: (n: string) => string;
         chunkCacheSize?: number;
     });
     /**
      * @param refName name of the reference sequence
+     *
      * @param start start of the region (in 0-based half-open coordinates)
+     *
      * @param end end of the region (in 0-based half-open coordinates)
-     * @param opts callback called for each line in the region. can also pass a object param containing obj.lineCallback, obj.signal, etc
-     * @returns promise that is resolved when the whole read is finished, rejected on error
+     *
+     * @param opts callback called for each line in the region. can also pass a
+     * object param containing obj.lineCallback, obj.signal, etc
+     *
+     * @returns promise that is resolved when the whole read is finished,
+     * rejected on error
      */
     getLines(refName: string, s: number | undefined, e: number | undefined, opts: GetLinesOpts | GetLinesCallback): Promise<void>;
     getMetadata(opts?: Options): Promise<{
@@ -62,31 +79,34 @@ export default class TabixIndexedFile {
         format: string;
     }>;
     /**
-     * get a buffer containing the "header" region of
-     * the file, which are the bytes up to the first
-     * non-meta line
+     * get a buffer containing the "header" region of the file, which are the
+     * bytes up to the first non-meta line
      */
     getHeaderBuffer(opts?: Options): Promise<Buffer>;
     /**
-     * get a string containing the "header" region of the
-     * file, is the portion up to the first non-meta line
+     * get a string containing the "header" region of the file, is the portion up
+     * to the first non-meta line
      *
      * @returns {Promise} for a string
      */
     getHeader(opts?: Options): Promise<string>;
     /**
-     * get an array of reference sequence names, in the order in which
-     * they occur in the file. reference sequence renaming is not applied
-     * to these names.
+     * get an array of reference sequence names, in the order in which they occur
+     * in the file. reference sequence renaming is not applied to these names.
      */
     getReferenceSequenceNames(opts?: Options): Promise<string[]>;
     /**
-     * @param {object} metadata metadata object from the parsed index,
-     * containing columnNumbers, metaChar, and format
+     * @param {object} metadata metadata object from the parsed index, containing
+     * columnNumbers, metaChar, and format
+     *
      * @param {string} regionRefName
+     *
      * @param {number} regionStart region start coordinate (0-based-half-open)
+     *
      * @param {number} regionEnd region end coordinate (0-based-half-open)
+     *
      * @param {array[string]} line
+     *
      * @returns {object} like `{startCoordinate, overlaps}`. overlaps is boolean,
      * true if line is a data line that overlaps the given region
      */
@@ -99,8 +119,11 @@ export default class TabixIndexedFile {
     };
     _getVcfEnd(startCoordinate: number, refSeq: string, info: any): number;
     /**
-     * return the approximate number of data lines in the given reference sequence
+     * return the approximate number of data lines in the given reference
+     * sequence
+     *
      * @param refSeq reference sequence name
+     *
      * @returns number of data lines present on that reference sequence
      */
     lineCount(refName: string, opts?: Options): Promise<number>;

package/esm/tabixIndexedFile.js

@@ -1,7 +1,7 @@
 import AbortablePromiseCache from '@gmod/abortable-promise-cache';
 import LRU from 'quick-lru';
 import { Buffer } from 'buffer';
-import { LocalFile } from 'generic-filehandle';
+import { RemoteFile, LocalFile } from 'generic-filehandle';
 import { unzip, unzipChunkSlice } from '@gmod/bgzf-filehandle';
 import { checkAbortSignal } from './util';
 import TBI from './tbi';
@@ -13,24 +13,37 @@ function timeout(time) {
 export default class TabixIndexedFile {
     /**
      * @param {object} args
+     *
      * @param {string} [args.path]
+     *
      * @param {filehandle} [args.filehandle]
+     *
      * @param {string} [args.tbiPath]
+     *
      * @param {filehandle} [args.tbiFilehandle]
+     *
      * @param {string} [args.csiPath]
+     *
      * @param {filehandle} [args.csiFilehandle]
-     * @param {number} [args.yieldTime] yield to main thread after N milliseconds if reading features is taking a long time to avoid hanging main thread
-     * @param {function} [args.renameRefSeqs] optional function with sig `string => string` to transform
-     * reference sequence names for the purpose of indexing and querying. note that the data that is returned is
-     * not altered, just the names of the reference sequences that are used for querying.
+     *
+     * @param {number} [args.yieldTime] yield to main thread after N milliseconds
+     * if reading features is taking a long time to avoid hanging main thread
+     *
+     * @param {function} [args.renameRefSeqs] optional function with sig `string
+     * => string` to transform reference sequence names for the purpose of
+     * indexing and querying. note that the data that is returned is not altered,
+     * just the names of the reference sequences that are used for querying.
      */
-    constructor({ path, filehandle, tbiPath, tbiFilehandle, csiPath, csiFilehandle, yieldTime = 500, chunkSizeLimit = 50000000, renameRefSeqs = n => n, chunkCacheSize = 5 * 2 ** 20, }) {
+    constructor({ path, filehandle, url, tbiPath, tbiUrl, tbiFilehandle, csiPath, csiUrl, csiFilehandle, yieldTime = 500, renameRefSeqs = n => n, chunkCacheSize = 5 * 2 ** 20, }) {
         if (filehandle) {
             this.filehandle = filehandle;
         }
         else if (path) {
             this.filehandle = new LocalFile(path);
         }
+        else if (url) {
+            this.filehandle = new RemoteFile(url);
+        }
         else {
             throw new TypeError('must provide either filehandle or path');
         }
@@ -64,10 +77,24 @@ export default class TabixIndexedFile {
                 renameRefSeqs,
             });
         }
+        else if (csiUrl) {
+            this.index = new CSI({
+                filehandle: new RemoteFile(csiUrl),
+            });
+        }
+        else if (tbiUrl) {
+            this.index = new TBI({
+                filehandle: new RemoteFile(tbiUrl),
+            });
+        }
+        else if (url) {
+            this.index = new TBI({
+                filehandle: new RemoteFile(`${url}.tbi`),
+            });
+        }
         else {
-            throw new TypeError('must provide one of tbiFilehandle, tbiPath, csiFilehandle, or csiPath');
+            throw new TypeError('must provide one of tbiFilehandle, tbiPath, csiFilehandle, csiPath, tbiUrl, csiUrl');
         }
-        this.chunkSizeLimit = chunkSizeLimit;
         this.renameRefSeq = renameRefSeqs;
         this.yieldTime = yieldTime;
         this.chunkCache = new AbortablePromiseCache({
@@ -77,19 +104,22 @@ export default class TabixIndexedFile {
     }
     /**
      * @param refName name of the reference sequence
+     *
      * @param start start of the region (in 0-based half-open coordinates)
+     *
      * @param end end of the region (in 0-based half-open coordinates)
-     * @param opts callback called for each line in the region. can also pass a object param containing obj.lineCallback, obj.signal, etc
-     * @returns promise that is resolved when the whole read is finished, rejected on error
+     *
+     * @param opts callback called for each line in the region. can also pass a
+     * object param containing obj.lineCallback, obj.signal, etc
+     *
+     * @returns promise that is resolved when the whole read is finished,
+     * rejected on error
      */
     async getLines(refName, s, e, opts) {
         var _a;
         let signal;
         let options = {};
         let callback;
-        if (opts === undefined) {
-            throw new TypeError('line callback must be provided');
-        }
         if (typeof opts === 'function') {
             callback = opts;
         }
@@ -98,12 +128,6 @@ export default class TabixIndexedFile {
             callback = opts.lineCallback;
             signal = opts.signal;
         }
-        if (refName === undefined) {
-            throw new TypeError('must provide a reference sequence name');
-        }
-        if (!callback) {
-            throw new TypeError('line callback must be provided');
-        }
         const metadata = await this.index.getMetadata(options);
         checkAbortSignal(signal);
         const start = s !== null && s !== void 0 ? s : 0;
@@ -116,14 +140,6 @@ export default class TabixIndexedFile {
         }
         const chunks = await this.index.blocksForRange(refName, start, end, options);
         checkAbortSignal(signal);
-        // check the chunks for any that are over the size limit.  if
-        // any are, don't fetch any of them
-        for (const chunk of chunks) {
-            const size = chunk.fetchedSize();
-            if (size > this.chunkSizeLimit) {
-                throw new Error(`Too much data. Chunk size ${size.toLocaleString()} bytes exceeds chunkSizeLimit of ${this.chunkSizeLimit.toLocaleString()}.`);
-            }
-        }
         // now go through each chunk and parse and filter the lines out of it
         let last = Date.now();
         for (const c of chunks) {
@@ -139,6 +155,7 @@ export default class TabixIndexedFile {
                 }
                 const b = buffer.slice(blockStart, n);
                 const line = (_a = decoder === null || decoder === void 0 ? void 0 : decoder.decode(b)) !== null && _a !== void 0 ? _a : b.toString();
+                // eslint-disable-next-line @typescript-eslint/no-unnecessary-condition
                 if (dpositions) {
                     while (blockStart + c.minv.dataPosition >= dpositions[pos++]) { }
                     pos--;
@@ -188,13 +205,13 @@ export default class TabixIndexedFile {
         return this.index.getMetadata(opts);
     }
     /**
-     * get a buffer containing the "header" region of
-     * the file, which are the bytes up to the first
-     * non-meta line
+     * get a buffer containing the "header" region of the file, which are the
+     * bytes up to the first non-meta line
      */
     async getHeaderBuffer(opts = {}) {
         const { firstDataLine, metaChar, maxBlockSize } = await this.getMetadata(opts);
         checkAbortSignal(opts.signal);
+        // eslint-disable-next-line @typescript-eslint/restrict-plus-operands
         const maxFetch = ((firstDataLine === null || firstDataLine === void 0 ? void 0 : firstDataLine.blockPosition) || 0) + maxBlockSize;
         // TODO: what if we don't have a firstDataLine, and the header
         // actually takes up more than one block? this case is not covered here
@@ -219,8 +236,8 @@ export default class TabixIndexedFile {
         return bytes;
     }
     /**
-     * get a string containing the "header" region of the
-     * file, is the portion up to the first non-meta line
+     * get a string containing the "header" region of the file, is the portion up
+     * to the first non-meta line
      *
      * @returns {Promise} for a string
      */
@@ -229,21 +246,25 @@ export default class TabixIndexedFile {
         return bytes.toString('utf8');
     }
     /**
-     * get an array of reference sequence names, in the order in which
-     * they occur in the file. reference sequence renaming is not applied
-     * to these names.
+     * get an array of reference sequence names, in the order in which they occur
+     * in the file. reference sequence renaming is not applied to these names.
      */
     async getReferenceSequenceNames(opts = {}) {
         const metadata = await this.getMetadata(opts);
         return metadata.refIdToName;
     }
     /**
-     * @param {object} metadata metadata object from the parsed index,
-     * containing columnNumbers, metaChar, and format
+     * @param {object} metadata metadata object from the parsed index, containing
+     * columnNumbers, metaChar, and format
+     *
      * @param {string} regionRefName
+     *
      * @param {number} regionStart region start coordinate (0-based-half-open)
+     *
      * @param {number} regionEnd region end coordinate (0-based-half-open)
+     *
      * @param {array[string]} line
+     *
      * @returns {object} like `{startCoordinate, overlaps}`. overlaps is boolean,
      * true if line is a data line that overlaps the given region
      */
@@ -268,9 +289,9 @@ export default class TabixIndexedFile {
             end = 8;
         }
         const maxColumn = Math.max(ref, start, end);
-        // this code is kind of complex, but it is fairly fast.
-        // basically, we want to avoid doing a split, because if the lines are really long
-        // that could lead to us allocating a bunch of extra memory, which is slow
+        // this code is kind of complex, but it is fairly fast. basically, we want
+        // to avoid doing a split, because if the lines are really long that could
+        // lead to us allocating a bunch of extra memory, which is slow
         let currentColumnNumber = 1; // cols are numbered starting at 1 in the index metadata
         let currentColumnStart = 0;
         let refSeq = '';
@@ -348,8 +369,11 @@ export default class TabixIndexedFile {
         return endCoordinate;
     }
     /**
-     * return the approximate number of data lines in the given reference sequence
+     * return the approximate number of data lines in the given reference
+     * sequence
+     *
      * @param refSeq reference sequence name
+     *
      * @returns number of data lines present on that reference sequence
      */
     async lineCount(refName, opts = {}) {
@@ -365,8 +389,8 @@ export default class TabixIndexedFile {
      * contiguous bgzip blocks) of the file
      */
     async readChunk(c, opts = {}) {
-        // fetch the uncompressed data, uncompress carefully a block at a time,
-        // and stop when done
+        // fetch the uncompressed data, uncompress carefully a block at a time, and
+        // stop when done
         const data = await this._readRegion(c.minv.blockPosition, c.fetchedSize(), opts);
         return unzipChunkSlice(data, c);
     }

package/esm/tabixIndexedFile.js.map

@@ -1 +1 @@
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package/esm/tbi.js

@@ -7,7 +7,8 @@ import IndexFile from './indexFile';
 const TBI_MAGIC = 21578324; // TBI\1
 const TAD_LIDX_SHIFT = 14;
 /**
- * calculate the list of bins that may overlap with region [beg,end) (zero-based half-open)
+ * calculate the list of bins that may overlap with region [beg,end)
+ * (zero-based half-open)
  */
 function reg2bins(beg, end) {
     beg += 1; // < convert to 1-based closed
@@ -24,10 +25,10 @@ function reg2bins(beg, end) {
 export default class TabixIndex extends IndexFile {
     async lineCount(refName, opts = {}) {
         const indexData = await this.parse(opts);
-        if (!indexData) {
+        const refId = indexData.refNameToId[refName];
+        if (refId === undefined) {
             return -1;
         }
-        const refId = indexData.refNameToId[refName];
         const idx = indexData.indices[refId];
         if (!idx) {
             return -1;
@@ -166,10 +167,10 @@ export default class TabixIndex extends IndexFile {
             min = 0;
         }
         const indexData = await this.parse(opts);
-        if (!indexData) {
+        const refId = indexData.refNameToId[refName];
+        if (refId === undefined) {
             return [];
         }
-        const refId = indexData.refNameToId[refName];
         const ba = indexData.indices[refId];
         if (!ba) {
             return [];

package/esm/tbi.js.map

@@ -1 +1 @@
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+{"version":3,"file":"tbi.js","sourceRoot":"","sources":["../src/tbi.ts"],"names":[],"mappings":"AAAA,OAAO,IAAI,MAAM,MAAM,CAAA;AAEvB,OAAO,aAAa,EAAE,EAAE,SAAS,EAAE,MAAM,iBAAiB,CAAA;AAC1D,OAAO,KAAK,MAAM,SAAS,CAAA;AAC3B,OAAO,EAAE,KAAK,EAAE,MAAM,uBAAuB,CAAA;AAC7C,OAAO,EAAE,YAAY,EAAE,cAAc,EAAE,gBAAgB,EAAE,MAAM,QAAQ,CAAA;AACvE,OAAO,SAAsB,MAAM,aAAa,CAAA;AAEhD,MAAM,SAAS,GAAG,QAAQ,CAAA,CAAC,QAAQ;AACnC,MAAM,cAAc,GAAG,EAAE,CAAA;AAEzB;;;GAGG;AACH,SAAS,QAAQ,CAAC,GAAW,EAAE,GAAW;IACxC,GAAG,IAAI,CAAC,CAAA,CAAC,8BAA8B;IACvC,GAAG,IAAI,CAAC,CAAA;IACR,OAAO;QACL,CAAC,CAAC,EAAE,CAAC,CAAC;QACN,CAAC,CAAC,GAAG,CAAC,GAAG,IAAI,EAAE,CAAC,EAAE,CAAC,GAAG,CAAC,GAAG,IAAI,EAAE,CAAC,CAAC;QAClC,CAAC,CAAC,GAAG,CAAC,GAAG,IAAI,EAAE,CAAC,EAAE,CAAC,GAAG,CAAC,GAAG,IAAI,EAAE,CAAC,CAAC;QAClC,CAAC,EAAE,GAAG,CAAC,GAAG,IAAI,EAAE,CAAC,EAAE,EAAE,GAAG,CAAC,GAAG,IAAI,EAAE,CAAC,CAAC;QACpC,CAAC,GAAG,GAAG,CAAC,GAAG,IAAI,EAAE,CAAC,EAAE,GAAG,GAAG,CAAC,GAAG,IAAI,EAAE,CAAC,CAAC;QACtC,CAAC,IAAI,GAAG,CAAC,GAAG,IAAI,EAAE,CAAC,EAAE,IAAI,GAAG,CAAC,GAAG,IAAI,EAAE,CAAC,CAAC;KAChC,CAAA;AACZ,CAAC;AAED,MAAM,CAAC,OAAO,OAAO,UAAW,SAAQ,SAAS;IAC/C,KAAK,CAAC,SAAS,CAAC,OAAe,EAAE,OAAgB,EAAE;QACjD,MAAM,SAAS,GAAG,MAAM,IAAI,CAAC,KAAK,CAAC,IAAI,CAAC,CAAA;QACxC,MAAM,KAAK,GAAG,SAAS,CAAC,WAAW,CAAC,OAAO,CAAC,CAAA;QAC5C,IAAI,KAAK,KAAK,SAAS,EAAE,CAAC;YACxB,OAAO,CAAC,CAAC,CAAA;QACX,CAAC;QACD,MAAM,GAAG,GAAG,SAAS,CAAC,OAAO,CAAC,KAAK,CAAC,CAAA;QACpC,IAAI,CAAC,GAAG,EAAE,CAAC;YACT,OAAO,CAAC,CAAC,CAAA;QACX,CAAC;QACD,MAAM,EAAE,KAAK,EAAE,GAAG,SAAS,CAAC,OAAO,CAAC,KAAK,CAAC,CAAA;QAC1C,IAAI,KAAK,EAAE,CAAC;YACV,OAAO,KAAK,CAAC,SAAS,CAAA;QACxB,CAAC;QACD,OAAO,CAAC,CAAC,CAAA;IACX,CAAC;IAED,4BAA4B;IAC5B,KAAK,CAAC,MAAM,CAAC,OAAgB,EAAE;QAC7B,MAAM,GAAG,GAAG,MAAM,IAAI,CAAC,UAAU,CAAC,QAAQ,CAAC,IAAI,CAAC,CAAA;QAChD,MAAM,KAAK,GAAG,MAAM,KAAK,CAAC,GAAG,CAAC,CAAA;QAC9B,gBAAgB,CAAC,IAAI,CAAC,MAAM,CAAC,CAAA;QAE7B,0BAA0B;QAC1B,IAAI,KAAK,CAAC,YAAY,CAAC,CAAC,CAAC,KAAK,SAAS,CAAC,aAAa,EAAE,CAAC;YACtD,MAAM,IAAI,KAAK,CAAC,gBAAgB,CAAC,CAAA;YACjC,oDAAoD;QACtD,CAAC;QAED,6CAA6C;QAC7C,MAAM,QAAQ,GAAG,KAAK,CAAC,WAAW,CAAC,CAAC,CAAC,CAAA;QACrC,MAAM,WAAW,GAAG,KAAK,CAAC,WAAW,CAAC,CAAC,CAAC,CAAA;QACxC,MAAM,cAAc,GAClB,WAAW,GAAG,OAAO,CAAC,CAAC,CAAC,sBAAsB,CAAC,CAAC,CAAC,gBAAgB,CAAA;QACnE,MAAM,UAAU,GAA2B;YACzC,CAAC,EAAE,SAAS;YACZ,CAAC,EAAE,KAAK;YACR,CAAC,EAAE,KAAK;SACT,CAAA;QACD,MAAM,MAAM,GAAG,UAAU,CAAC,WAAW,GAAG,GAAG,CAAC,CAAA;QAC5C,IAAI,CAAC,MAAM,EAAE,CAAC;YACZ,MAAM,IAAI,KAAK,CAAC,qCAAqC,WAAW,EAAE,CAAC,CAAA;QACrE,CAAC;QACD,MAAM,aAAa,GAAG;YACpB,GAAG,EAAE,KAAK,CAAC,WAAW,CAAC,EAAE,CAAC;YAC1B,KAAK,EAAE,KAAK,CAAC,WAAW,CAAC,EAAE,CAAC;YAC5B,GAAG,EAAE,KAAK,CAAC,WAAW,CAAC,EAAE,CAAC;SAC3B,CAAA;QACD,MAAM,SAAS,GAAG,KAAK,CAAC,WAAW,CAAC,EAAE,CAAC,CAAA;QACvC,MAAM,KAAK,GAAG,CAAC,CAAA;QACf,MAAM,YAAY,GAAG,CAAC,CAAC,CAAC,IAAI,CAAC,CAAC,KAAK,GAAG,CAAC,CAAC,GAAG,CAAC,CAAC,CAAC,GAAG,CAAC,CAAC,GAAG,CAAC,CAAA;QACvD,MAAM,YAAY,GAAG,CAAC,IAAI,CAAC,EAAE,GAAG,KAAK,GAAG,CAAC,CAAC,CAAA;QAC1C,MAAM,QAAQ,GAAG,SAAS,CAAC,CAAC,CAAC,MAAM,CAAC,YAAY,CAAC,SAAS,CAAC,CAAC,CAAC,CAAC,IAAI,CAAA;QAClE,MAAM,SAAS,GAAG,KAAK,CAAC,WAAW,CAAC,EAAE,CAAC,CAAA;QAEvC,2BAA2B;QAC3B,MAAM,iBAAiB,GAAG,KAAK,CAAC,WAAW,CAAC,EAAE,CAAC,CAAA;QAC/C,MAAM,EAAE,WAAW,EAAE,WAAW,EAAE,GAAG,IAAI,CAAC,eAAe,CACvD,KAAK,CAAC,KAAK,CAAC,EAAE,EAAE,EAAE,GAAG,iBAAiB,CAAC,CACxC,CAAA;QAED,+CAA+C;QAC/C,IAAI,UAAU,GAAG,EAAE,GAAG,iBAAiB,CAAA;QACvC,IAAI,aAAwC,CAAA;QAC5C,MAAM,OAAO,GAAG,IAAI,KAAK,CAAC,QAAQ,CAAC,CAAC,IAAI,CAAC,CAAC,CAAC,CAAC,GAAG,CAAC,GAAG,EAAE;YACnD,oBAAoB;YACpB,MAAM,QAAQ,GAAG,KAAK,CAAC,WAAW,CAAC,UAAU,CAAC,CAAA;YAC9C,UAAU,IAAI,CAAC,CAAA;YACf,MAAM,QAAQ,GAA4B,EAAE,CAAA;YAC5C,IAAI,KAAK,CAAA;YACT,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,QAAQ,EAAE,CAAC,IAAI,CAAC,EAAE,CAAC;gBACrC,MAAM,GAAG,GAAG,KAAK,CAAC,YAAY,CAAC,UAAU,CAAC,CAAA;gBAC1C,UAAU,IAAI,CAAC,CAAA;gBACf,IAAI,GAAG,GAAG,YAAY,GAAG,CAAC,EAAE,CAAC;oBAC3B,MAAM,IAAI,KAAK,CACb,4DAA4D,CAC7D,CAAA;gBACH,CAAC;qBAAM,IAAI,GAAG,KAAK,YAAY,GAAG,CAAC,EAAE,CAAC;oBACpC,MAAM,UAAU,GAAG,KAAK,CAAC,WAAW,CAAC,UAAU,CAAC,CAAA;oBAChD,UAAU,IAAI,CAAC,CAAA;oBACf,IAAI,UAAU,KAAK,CAAC,EAAE,CAAC;wBACrB,KAAK,GAAG,IAAI,CAAC,cAAc,CAAC,KAAK,EAAE,UAAU,CAAC,CAAA;oBAChD,CAAC;oBACD,UAAU,IAAI,EAAE,GAAG,UAAU,CAAA;gBAC/B,CAAC;qBAAM,CAAC;oBACN,MAAM,UAAU,GAAG,KAAK,CAAC,WAAW,CAAC,UAAU,CAAC,CAAA;oBAChD,UAAU,IAAI,CAAC,CAAA;oBACf,MAAM,MAAM,GAAG,IAAI,KAAK,CAAC,UAAU,CAAC,CAAA;oBACpC,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,UAAU,EAAE,CAAC,IAAI,CAAC,EAAE,CAAC;wBACvC,MAAM,CAAC,GAAG,SAAS,CAAC,KAAK,EAAE,UAAU,CAAC,CAAA;wBACtC,MAAM,CAAC,GAAG,SAAS,CAAC,KAAK,EAAE,UAAU,GAAG,CAAC,CAAC,CAAA;wBAC1C,UAAU,IAAI,EAAE,CAAA;wBAChB,aAAa,GAAG,IAAI,CAAC,cAAc,CAAC,aAAa,EAAE,CAAC,CAAC,CAAA;wBACrD,MAAM,CAAC,CAAC,CAAC,GAAG,IAAI,KAAK,CAAC,CAAC,EAAE,CAAC,EAAE,GAAG,CAAC,CAAA;oBAClC,CAAC;oBACD,QAAQ,CAAC,GAAG,CAAC,GAAG,MAAM,CAAA;gBACxB,CAAC;YACH,CAAC;YAED,mBAAmB;YACnB,MAAM,WAAW,GAAG,KAAK,CAAC,WAAW,CAAC,UAAU,CAAC,CAAA;YACjD,UAAU,IAAI,CAAC,CAAA;YACf,MAAM,WAAW,GAAG,IAAI,KAAK,CAAC,WAAW,CAAC,CAAA;YAC1C,KAAK,IAAI,CAAC,GAAG,CAAC,EAAE,CAAC,GAAG,WAAW,EAAE,CAAC,IAAI,CAAC,EAAE,CAAC;gBACxC,WAAW,CAAC,CAAC,CAAC,GAAG,SAAS,CAAC,KAAK,EAAE,UAAU,CAAC,CAAA;gBAC7C,UAAU,IA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package/esm/util.d.ts

@@ -2,14 +2,15 @@ import Chunk from './chunk';
 import VirtualOffset from './virtualOffset';
 export declare function longToNumber(long: Long): number;
 /**
- * Properly check if the given AbortSignal is aborted.
- * Per the standard, if the signal reads as aborted,
- * this function throws either a DOMException AbortError, or a regular error
- * with a `code` attribute set to `ERR_ABORTED`.
+ * Properly check if the given AbortSignal is aborted. Per the standard, if the
+ * signal reads as aborted, this function throws either a DOMException
+ * AbortError, or a regular error with a `code` attribute set to `ERR_ABORTED`.
  *
  * For convenience, passing `undefined` is a no-op
  *
- * @param {AbortSignal} [signal] an AbortSignal, or anything with an `aborted` attribute
+ * @param {AbortSignal} [signal] an AbortSignal, or anything with an `aborted`
+ * attribute
+ *
  * @returns nothing
  */
 export declare function checkAbortSignal(signal?: AbortSignal): void;
@@ -21,4 +22,4 @@ export declare function checkAbortSignal(signal?: AbortSignal): void;
  */
 export declare function abortBreakPoint(signal?: AbortSignal): Promise<void>;
 export declare function canMergeBlocks(chunk1: Chunk, chunk2: Chunk): boolean;
-export declare function optimizeChunks(chunks: Chunk[], lowest: VirtualOffset): Chunk[];
+export declare function optimizeChunks(chunks: Chunk[], lowest?: VirtualOffset): Chunk[];

package/esm/util.js

@@ -8,14 +8,15 @@ export function longToNumber(long) {
 class AbortError extends Error {
 }
 /**
- * Properly check if the given AbortSignal is aborted.
- * Per the standard, if the signal reads as aborted,
- * this function throws either a DOMException AbortError, or a regular error
- * with a `code` attribute set to `ERR_ABORTED`.
+ * Properly check if the given AbortSignal is aborted. Per the standard, if the
+ * signal reads as aborted, this function throws either a DOMException
+ * AbortError, or a regular error with a `code` attribute set to `ERR_ABORTED`.
  *
  * For convenience, passing `undefined` is a no-op
  *
- * @param {AbortSignal} [signal] an AbortSignal, or anything with an `aborted` attribute
+ * @param {AbortSignal} [signal] an AbortSignal, or anything with an `aborted`
+ * attribute
+ *
  * @returns nothing
  */
 export function checkAbortSignal(signal) {

package/esm/util.js.map

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package/esm/virtualOffset.d.ts

@@ -5,6 +5,5 @@ export default class VirtualOffset {
     constructor(blockPosition: number, dataPosition: number);
     toString(): string;
     compareTo(b: VirtualOffset): number;
-    static min(...args: VirtualOffset[]): VirtualOffset;
 }
 export declare function fromBytes(bytes: Buffer, offset?: number, bigendian?: boolean): VirtualOffset;

package/esm/virtualOffset.js

@@ -9,19 +9,6 @@ export default class VirtualOffset {
     compareTo(b) {
         return (this.blockPosition - b.blockPosition || this.dataPosition - b.dataPosition);
     }
-    static min(...args) {
-        let min;
-        let i = 0;
-        for (; !min; i += 1) {
-            min = args[i];
-        }
-        for (; i < args.length; i += 1) {
-            if (min.compareTo(args[i]) > 0) {
-                min = args[i];
-            }
-        }
-        return min;
-    }
 }
 export function fromBytes(bytes, offset = 0, bigendian = false) {
     if (bigendian) {

package/esm/virtualOffset.js.map

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