@realsee/dnalogel 2.1.0-alpha.15 → 2.1.0-alpha.17

package/libs/node_modules/glob/glob.js

@@ -1,658 +0,0 @@
-// Approach:
-//
-// 1. Get the minimatch set
-// 2. For each pattern in the set, PROCESS(pattern, false)
-// 3. Store matches per-set, then uniq them
-//
-// PROCESS(pattern, inGlobStar)
-// Get the first [n] items from pattern that are all strings
-// Join these together.  This is PREFIX.
-//   If there is no more remaining, then stat(PREFIX) and
-//   add to matches if it succeeds.  END.
-//
-// If inGlobStar and PREFIX is symlink and points to dir
-//   set ENTRIES = []
-// else readdir(PREFIX) as ENTRIES
-//   If fail, END
-//
-// with ENTRIES
-//   If pattern[n] is GLOBSTAR
-//     // handle the case where the globstar match is empty
-//     // by pruning it out, and testing the resulting pattern
-//     PROCESS(pattern[0..n] + pattern[n+1 .. $], false)
-//     // handle other cases.
-//     for ENTRY in ENTRIES (not dotfiles)
-//       // attach globstar + tail onto the entry
-//       // Mark that this entry is a globstar match
-//       PROCESS(pattern[0..n] + ENTRY + pattern[n .. $], true)
-//
-//   else // not globstar
-//     for ENTRY in ENTRIES (not dotfiles, unless pattern[n] is dot)
-//       Test ENTRY against pattern[n]
-//       If fails, continue
-//       If passes, PROCESS(pattern[0..n] + item + pattern[n+1 .. $])
-//
-// Caveat:
-//   Cache all stats and readdirs results to minimize syscall.  Since all
-//   we ever care about is existence and directory-ness, we can just keep
-//   `true` for files, and [children,...] for directories, or `false` for
-//   things that don't exist.
-module.exports = glob;
-var rp = require('fs.realpath');
-var minimatch = require('minimatch');
-var Minimatch = minimatch.Minimatch;
-var inherits = require('inherits');
-var EE = require('events').EventEmitter;
-var path = require('path');
-var assert = require('assert');
-var isAbsolute = require('path').isAbsolute;
-var globSync = require('./sync.js');
-var common = require('./common.js');
-var setopts = common.setopts;
-var ownProp = common.ownProp;
-var inflight = require('inflight');
-var util = require('util');
-var childrenIgnored = common.childrenIgnored;
-var isIgnored = common.isIgnored;
-var once = require('once');
-function glob(pattern, options, cb) {
-    if (typeof options === 'function')
-        cb = options, options = {};
-    if (!options)
-        options = {};
-    if (options.sync) {
-        if (cb)
-            throw new TypeError('callback provided to sync glob');
-        return globSync(pattern, options);
-    }
-    return new Glob(pattern, options, cb);
-}
-glob.sync = globSync;
-var GlobSync = glob.GlobSync = globSync.GlobSync;
-// old api surface
-glob.glob = glob;
-function extend(origin, add) {
-    if (add === null || typeof add !== 'object') {
-        return origin;
-    }
-    var keys = Object.keys(add);
-    var i = keys.length;
-    while (i--) {
-        origin[keys[i]] = add[keys[i]];
-    }
-    return origin;
-}
-glob.hasMagic = function (pattern, options_) {
-    var options = extend({}, options_);
-    options.noprocess = true;
-    var g = new Glob(pattern, options);
-    var set = g.minimatch.set;
-    if (!pattern)
-        return false;
-    if (set.length > 1)
-        return true;
-    for (var j = 0; j < set[0].length; j++) {
-        if (typeof set[0][j] !== 'string')
-            return true;
-    }
-    return false;
-};
-glob.Glob = Glob;
-inherits(Glob, EE);
-function Glob(pattern, options, cb) {
-    if (typeof options === 'function') {
-        cb = options;
-        options = null;
-    }
-    if (options && options.sync) {
-        if (cb)
-            throw new TypeError('callback provided to sync glob');
-        return new GlobSync(pattern, options);
-    }
-    if (!(this instanceof Glob))
-        return new Glob(pattern, options, cb);
-    setopts(this, pattern, options);
-    this._didRealPath = false;
-    // process each pattern in the minimatch set
-    var n = this.minimatch.set.length;
-    // The matches are stored as {<filename>: true,...} so that
-    // duplicates are automagically pruned.
-    // Later, we do an Object.keys() on these.
-    // Keep them as a list so we can fill in when nonull is set.
-    this.matches = new Array(n);
-    if (typeof cb === 'function') {
-        cb = once(cb);
-        this.on('error', cb);
-        this.on('end', function (matches) {
-            cb(null, matches);
-        });
-    }
-    var self = this;
-    this._processing = 0;
-    this._emitQueue = [];
-    this._processQueue = [];
-    this.paused = false;
-    if (this.noprocess)
-        return this;
-    if (n === 0)
-        return done();
-    var sync = true;
-    for (var i = 0; i < n; i++) {
-        this._process(this.minimatch.set[i], i, false, done);
-    }
-    sync = false;
-    function done() {
-        --self._processing;
-        if (self._processing <= 0) {
-            if (sync) {
-                process.nextTick(function () {
-                    self._finish();
-                });
-            }
-            else {
-                self._finish();
-            }
-        }
-    }
-}
-Glob.prototype._finish = function () {
-    assert(this instanceof Glob);
-    if (this.aborted)
-        return;
-    if (this.realpath && !this._didRealpath)
-        return this._realpath();
-    common.finish(this);
-    this.emit('end', this.found);
-};
-Glob.prototype._realpath = function () {
-    if (this._didRealpath)
-        return;
-    this._didRealpath = true;
-    var n = this.matches.length;
-    if (n === 0)
-        return this._finish();
-    var self = this;
-    for (var i = 0; i < this.matches.length; i++)
-        this._realpathSet(i, next);
-    function next() {
-        if (--n === 0)
-            self._finish();
-    }
-};
-Glob.prototype._realpathSet = function (index, cb) {
-    var matchset = this.matches[index];
-    if (!matchset)
-        return cb();
-    var found = Object.keys(matchset);
-    var self = this;
-    var n = found.length;
-    if (n === 0)
-        return cb();
-    var set = this.matches[index] = Object.create(null);
-    found.forEach(function (p, i) {
-        // If there's a problem with the stat, then it means that
-        // one or more of the links in the realpath couldn't be
-        // resolved.  just return the abs value in that case.
-        p = self._makeAbs(p);
-        rp.realpath(p, self.realpathCache, function (er, real) {
-            if (!er)
-                set[real] = true;
-            else if (er.syscall === 'stat')
-                set[p] = true;
-            else
-                self.emit('error', er); // srsly wtf right here
-            if (--n === 0) {
-                self.matches[index] = set;
-                cb();
-            }
-        });
-    });
-};
-Glob.prototype._mark = function (p) {
-    return common.mark(this, p);
-};
-Glob.prototype._makeAbs = function (f) {
-    return common.makeAbs(this, f);
-};
-Glob.prototype.abort = function () {
-    this.aborted = true;
-    this.emit('abort');
-};
-Glob.prototype.pause = function () {
-    if (!this.paused) {
-        this.paused = true;
-        this.emit('pause');
-    }
-};
-Glob.prototype.resume = function () {
-    if (this.paused) {
-        this.emit('resume');
-        this.paused = false;
-        if (this._emitQueue.length) {
-            var eq = this._emitQueue.slice(0);
-            this._emitQueue.length = 0;
-            for (var i = 0; i < eq.length; i++) {
-                var e = eq[i];
-                this._emitMatch(e[0], e[1]);
-            }
-        }
-        if (this._processQueue.length) {
-            var pq = this._processQueue.slice(0);
-            this._processQueue.length = 0;
-            for (var i = 0; i < pq.length; i++) {
-                var p = pq[i];
-                this._processing--;
-                this._process(p[0], p[1], p[2], p[3]);
-            }
-        }
-    }
-};
-Glob.prototype._process = function (pattern, index, inGlobStar, cb) {
-    assert(this instanceof Glob);
-    assert(typeof cb === 'function');
-    if (this.aborted)
-        return;
-    this._processing++;
-    if (this.paused) {
-        this._processQueue.push([pattern, index, inGlobStar, cb]);
-        return;
-    }
-    //console.error('PROCESS %d', this._processing, pattern)
-    // Get the first [n] parts of pattern that are all strings.
-    var n = 0;
-    while (typeof pattern[n] === 'string') {
-        n++;
-    }
-    // now n is the index of the first one that is *not* a string.
-    // see if there's anything else
-    var prefix;
-    switch (n) {
-        // if not, then this is rather simple
-        case pattern.length:
-            this._processSimple(pattern.join('/'), index, cb);
-            return;
-        case 0:
-            // pattern *starts* with some non-trivial item.
-            // going to readdir(cwd), but not include the prefix in matches.
-            prefix = null;
-            break;
-        default:
-            // pattern has some string bits in the front.
-            // whatever it starts with, whether that's 'absolute' like /foo/bar,
-            // or 'relative' like '../baz'
-            prefix = pattern.slice(0, n).join('/');
-            break;
-    }
-    var remain = pattern.slice(n);
-    // get the list of entries.
-    var read;
-    if (prefix === null)
-        read = '.';
-    else if (isAbsolute(prefix) ||
-        isAbsolute(pattern.map(function (p) {
-            return typeof p === 'string' ? p : '[*]';
-        }).join('/'))) {
-        if (!prefix || !isAbsolute(prefix))
-            prefix = '/' + prefix;
-        read = prefix;
-    }
-    else
-        read = prefix;
-    var abs = this._makeAbs(read);
-    //if ignored, skip _processing
-    if (childrenIgnored(this, read))
-        return cb();
-    var isGlobStar = remain[0] === minimatch.GLOBSTAR;
-    if (isGlobStar)
-        this._processGlobStar(prefix, read, abs, remain, index, inGlobStar, cb);
-    else
-        this._processReaddir(prefix, read, abs, remain, index, inGlobStar, cb);
-};
-Glob.prototype._processReaddir = function (prefix, read, abs, remain, index, inGlobStar, cb) {
-    var self = this;
-    this._readdir(abs, inGlobStar, function (er, entries) {
-        return self._processReaddir2(prefix, read, abs, remain, index, inGlobStar, entries, cb);
-    });
-};
-Glob.prototype._processReaddir2 = function (prefix, read, abs, remain, index, inGlobStar, entries, cb) {
-    // if the abs isn't a dir, then nothing can match!
-    if (!entries)
-        return cb();
-    // It will only match dot entries if it starts with a dot, or if
-    // dot is set.  Stuff like @(.foo|.bar) isn't allowed.
-    var pn = remain[0];
-    var negate = !!this.minimatch.negate;
-    var rawGlob = pn._glob;
-    var dotOk = this.dot || rawGlob.charAt(0) === '.';
-    var matchedEntries = [];
-    for (var i = 0; i < entries.length; i++) {
-        var e = entries[i];
-        if (e.charAt(0) !== '.' || dotOk) {
-            var m;
-            if (negate && !prefix) {
-                m = !e.match(pn);
-            }
-            else {
-                m = e.match(pn);
-            }
-            if (m)
-                matchedEntries.push(e);
-        }
-    }
-    //console.error('prd2', prefix, entries, remain[0]._glob, matchedEntries)
-    var len = matchedEntries.length;
-    // If there are no matched entries, then nothing matches.
-    if (len === 0)
-        return cb();
-    // if this is the last remaining pattern bit, then no need for
-    // an additional stat *unless* the user has specified mark or
-    // stat explicitly.  We know they exist, since readdir returned
-    // them.
-    if (remain.length === 1 && !this.mark && !this.stat) {
-        if (!this.matches[index])
-            this.matches[index] = Object.create(null);
-        for (var i = 0; i < len; i++) {
-            var e = matchedEntries[i];
-            if (prefix) {
-                if (prefix !== '/')
-                    e = prefix + '/' + e;
-                else
-                    e = prefix + e;
-            }
-            if (e.charAt(0) === '/' && !this.nomount) {
-                e = path.join(this.root, e);
-            }
-            this._emitMatch(index, e);
-        }
-        // This was the last one, and no stats were needed
-        return cb();
-    }
-    // now test all matched entries as stand-ins for that part
-    // of the pattern.
-    remain.shift();
-    for (var i = 0; i < len; i++) {
-        var e = matchedEntries[i];
-        var newPattern;
-        if (prefix) {
-            if (prefix !== '/')
-                e = prefix + '/' + e;
-            else
-                e = prefix + e;
-        }
-        this._process([e].concat(remain), index, inGlobStar, cb);
-    }
-    cb();
-};
-Glob.prototype._emitMatch = function (index, e) {
-    if (this.aborted)
-        return;
-    if (isIgnored(this, e))
-        return;
-    if (this.paused) {
-        this._emitQueue.push([index, e]);
-        return;
-    }
-    var abs = isAbsolute(e) ? e : this._makeAbs(e);
-    if (this.mark)
-        e = this._mark(e);
-    if (this.absolute)
-        e = abs;
-    if (this.matches[index][e])
-        return;
-    if (this.nodir) {
-        var c = this.cache[abs];
-        if (c === 'DIR' || Array.isArray(c))
-            return;
-    }
-    this.matches[index][e] = true;
-    var st = this.statCache[abs];
-    if (st)
-        this.emit('stat', e, st);
-    this.emit('match', e);
-};
-Glob.prototype._readdirInGlobStar = function (abs, cb) {
-    if (this.aborted)
-        return;
-    // follow all symlinked directories forever
-    // just proceed as if this is a non-globstar situation
-    if (this.follow)
-        return this._readdir(abs, false, cb);
-    var lstatkey = 'lstat\0' + abs;
-    var self = this;
-    var lstatcb = inflight(lstatkey, lstatcb_);
-    if (lstatcb)
-        self.fs.lstat(abs, lstatcb);
-    function lstatcb_(er, lstat) {
-        if (er && er.code === 'ENOENT')
-            return cb();
-        var isSym = lstat && lstat.isSymbolicLink();
-        self.symlinks[abs] = isSym;
-        // If it's not a symlink or a dir, then it's definitely a regular file.
-        // don't bother doing a readdir in that case.
-        if (!isSym && lstat && !lstat.isDirectory()) {
-            self.cache[abs] = 'FILE';
-            cb();
-        }
-        else
-            self._readdir(abs, false, cb);
-    }
-};
-Glob.prototype._readdir = function (abs, inGlobStar, cb) {
-    if (this.aborted)
-        return;
-    cb = inflight('readdir\0' + abs + '\0' + inGlobStar, cb);
-    if (!cb)
-        return;
-    //console.error('RD %j %j', +inGlobStar, abs)
-    if (inGlobStar && !ownProp(this.symlinks, abs))
-        return this._readdirInGlobStar(abs, cb);
-    if (ownProp(this.cache, abs)) {
-        var c = this.cache[abs];
-        if (!c || c === 'FILE')
-            return cb();
-        if (Array.isArray(c))
-            return cb(null, c);
-    }
-    var self = this;
-    self.fs.readdir(abs, readdirCb(this, abs, cb));
-};
-function readdirCb(self, abs, cb) {
-    return function (er, entries) {
-        if (er)
-            self._readdirError(abs, er, cb);
-        else
-            self._readdirEntries(abs, entries, cb);
-    };
-}
-Glob.prototype._readdirEntries = function (abs, entries, cb) {
-    if (this.aborted)
-        return;
-    // if we haven't asked to stat everything, then just
-    // assume that everything in there exists, so we can avoid
-    // having to stat it a second time.
-    if (!this.mark && !this.stat) {
-        for (var i = 0; i < entries.length; i++) {
-            var e = entries[i];
-            if (abs === '/')
-                e = abs + e;
-            else
-                e = abs + '/' + e;
-            this.cache[e] = true;
-        }
-    }
-    this.cache[abs] = entries;
-    return cb(null, entries);
-};
-Glob.prototype._readdirError = function (f, er, cb) {
-    if (this.aborted)
-        return;
-    // handle errors, and cache the information
-    switch (er.code) {
-        case 'ENOTSUP': // https://github.com/isaacs/node-glob/issues/205
-        case 'ENOTDIR': // totally normal. means it *does* exist.
-            var abs = this._makeAbs(f);
-            this.cache[abs] = 'FILE';
-            if (abs === this.cwdAbs) {
-                var error = new Error(er.code + ' invalid cwd ' + this.cwd);
-                error.path = this.cwd;
-                error.code = er.code;
-                this.emit('error', error);
-                this.abort();
-            }
-            break;
-        case 'ENOENT': // not terribly unusual
-        case 'ELOOP':
-        case 'ENAMETOOLONG':
-        case 'UNKNOWN':
-            this.cache[this._makeAbs(f)] = false;
-            break;
-        default: // some unusual error.  Treat as failure.
-            this.cache[this._makeAbs(f)] = false;
-            if (this.strict) {
-                this.emit('error', er);
-                // If the error is handled, then we abort
-                // if not, we threw out of here
-                this.abort();
-            }
-            if (!this.silent)
-                console.error('glob error', er);
-            break;
-    }
-    return cb();
-};
-Glob.prototype._processGlobStar = function (prefix, read, abs, remain, index, inGlobStar, cb) {
-    var self = this;
-    this._readdir(abs, inGlobStar, function (er, entries) {
-        self._processGlobStar2(prefix, read, abs, remain, index, inGlobStar, entries, cb);
-    });
-};
-Glob.prototype._processGlobStar2 = function (prefix, read, abs, remain, index, inGlobStar, entries, cb) {
-    //console.error('pgs2', prefix, remain[0], entries)
-    // no entries means not a dir, so it can never have matches
-    // foo.txt/** doesn't match foo.txt
-    if (!entries)
-        return cb();
-    // test without the globstar, and with every child both below
-    // and replacing the globstar.
-    var remainWithoutGlobStar = remain.slice(1);
-    var gspref = prefix ? [prefix] : [];
-    var noGlobStar = gspref.concat(remainWithoutGlobStar);
-    // the noGlobStar pattern exits the inGlobStar state
-    this._process(noGlobStar, index, false, cb);
-    var isSym = this.symlinks[abs];
-    var len = entries.length;
-    // If it's a symlink, and we're in a globstar, then stop
-    if (isSym && inGlobStar)
-        return cb();
-    for (var i = 0; i < len; i++) {
-        var e = entries[i];
-        if (e.charAt(0) === '.' && !this.dot)
-            continue;
-        // these two cases enter the inGlobStar state
-        var instead = gspref.concat(entries[i], remainWithoutGlobStar);
-        this._process(instead, index, true, cb);
-        var below = gspref.concat(entries[i], remain);
-        this._process(below, index, true, cb);
-    }
-    cb();
-};
-Glob.prototype._processSimple = function (prefix, index, cb) {
-    // XXX review this.  Shouldn't it be doing the mounting etc
-    // before doing stat?  kinda weird?
-    var self = this;
-    this._stat(prefix, function (er, exists) {
-        self._processSimple2(prefix, index, er, exists, cb);
-    });
-};
-Glob.prototype._processSimple2 = function (prefix, index, er, exists, cb) {
-    //console.error('ps2', prefix, exists)
-    if (!this.matches[index])
-        this.matches[index] = Object.create(null);
-    // If it doesn't exist, then just mark the lack of results
-    if (!exists)
-        return cb();
-    if (prefix && isAbsolute(prefix) && !this.nomount) {
-        var trail = /[\/\\]$/.test(prefix);
-        if (prefix.charAt(0) === '/') {
-            prefix = path.join(this.root, prefix);
-        }
-        else {
-            prefix = path.resolve(this.root, prefix);
-            if (trail)
-                prefix += '/';
-        }
-    }
-    if (process.platform === 'win32')
-        prefix = prefix.replace(/\\/g, '/');
-    // Mark this as a match
-    this._emitMatch(index, prefix);
-    cb();
-};
-// Returns either 'DIR', 'FILE', or false
-Glob.prototype._stat = function (f, cb) {
-    var abs = this._makeAbs(f);
-    var needDir = f.slice(-1) === '/';
-    if (f.length > this.maxLength)
-        return cb();
-    if (!this.stat && ownProp(this.cache, abs)) {
-        var c = this.cache[abs];
-        if (Array.isArray(c))
-            c = 'DIR';
-        // It exists, but maybe not how we need it
-        if (!needDir || c === 'DIR')
-            return cb(null, c);
-        if (needDir && c === 'FILE')
-            return cb();
-        // otherwise we have to stat, because maybe c=true
-        // if we know it exists, but not what it is.
-    }
-    var exists;
-    var stat = this.statCache[abs];
-    if (stat !== undefined) {
-        if (stat === false)
-            return cb(null, stat);
-        else {
-            var type = stat.isDirectory() ? 'DIR' : 'FILE';
-            if (needDir && type === 'FILE')
-                return cb();
-            else
-                return cb(null, type, stat);
-        }
-    }
-    var self = this;
-    var statcb = inflight('stat\0' + abs, lstatcb_);
-    if (statcb)
-        self.fs.lstat(abs, statcb);
-    function lstatcb_(er, lstat) {
-        if (lstat && lstat.isSymbolicLink()) {
-            // If it's a symlink, then treat it as the target, unless
-            // the target does not exist, then treat it as a file.
-            return self.fs.stat(abs, function (er, stat) {
-                if (er)
-                    self._stat2(f, abs, null, lstat, cb);
-                else
-                    self._stat2(f, abs, er, stat, cb);
-            });
-        }
-        else {
-            self._stat2(f, abs, er, lstat, cb);
-        }
-    }
-};
-Glob.prototype._stat2 = function (f, abs, er, stat, cb) {
-    if (er && (er.code === 'ENOENT' || er.code === 'ENOTDIR')) {
-        this.statCache[abs] = false;
-        return cb();
-    }
-    var needDir = f.slice(-1) === '/';
-    this.statCache[abs] = stat;
-    if (abs.slice(-1) === '/' && stat && !stat.isDirectory())
-        return cb(null, false, stat);
-    var c = true;
-    if (stat)
-        c = stat.isDirectory() ? 'DIR' : 'FILE';
-    this.cache[abs] = this.cache[abs] || c;
-    if (needDir && c === 'FILE')
-        return cb();
-    return cb(null, c, stat);
-};

package/libs/node_modules/glob/sync.d.ts

@@ -1,23 +0,0 @@
-export = globSync;
-declare function globSync(pattern: any, options: any, ...args: any[]): any;
-declare namespace globSync {
-    export { GlobSync };
-}
-declare function GlobSync(pattern: any, options: any, ...args: any[]): GlobSync;
-declare class GlobSync {
-    constructor(pattern: any, options: any, ...args: any[]);
-    matches: any[];
-    _finish(): void;
-    _process(pattern: any, index: any, inGlobStar: any): void;
-    _processReaddir(prefix: any, read: any, abs: any, remain: any, index: any, inGlobStar: any): void;
-    _emitMatch(index: any, e: any): void;
-    _readdirInGlobStar(abs: any): any;
-    _readdir(abs: any, inGlobStar: any): any;
-    _readdirEntries(abs: any, entries: any): any;
-    _readdirError(f: any, er: any): void;
-    _processGlobStar(prefix: any, read: any, abs: any, remain: any, index: any, inGlobStar: any): void;
-    _processSimple(prefix: any, index: any): void;
-    _stat(f: any): any;
-    _mark(p: any): any;
-    _makeAbs(f: any): any;
-}