Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / GMOD/bam-js issues and pull requests

#103 - Fix BAM header parsing failing on refNames containing a colon

Pull Request - State: closed - Opened by cmdcolin 8 months ago - 1 comment

#102 - Update to buffer-crc32 1.0.0

Pull Request - State: closed - Opened by kibertoad 8 months ago - 2 comments

#101 - Update eslint to properly use typescript config

Pull Request - State: closed - Opened by cmdcolin 9 months ago - 1 comment

#100 - Support for Content-Encoding:gzip(?)

Issue - State: open - Opened by cmdcolin 10 months ago - 2 comments

#99 - Remove dependency on long package

Pull Request - State: open - Opened by cmdcolin about 1 year ago

#98 - feat: explicit buffer import

Pull Request - State: closed - Opened by sehilyi over 1 year ago - 3 comments

#97 - Typing issues

Issue - State: open - Opened by tuner over 1 year ago - 5 comments

#96 - Improve typescripting, remove chunkSizeLimit/fetchSizeLimit

Pull Request - State: closed - Opened by cmdcolin over 1 year ago - 3 comments

#95 - Update devDeps, remove object.entries and cross-fetch polyfills, improved typescripting

Pull Request - State: closed - Opened by cmdcolin over 1 year ago - 3 comments

#94 - Bump json5 from 1.0.1 to 1.0.2

Pull Request - State: closed - Opened by dependabot[bot] over 1 year ago - 2 comments
Labels: dependencies

#93 - LocalFile is not a constructor

Issue - State: closed - Opened by amijalis about 2 years ago - 2 comments

#92 - Use --module esm for module in package.json

Pull Request - State: closed - Opened by cmdcolin over 2 years ago - 1 comment

#91 - Bump minimist from 1.2.5 to 1.2.6

Pull Request - State: closed - Opened by dependabot[bot] over 2 years ago - 2 comments
Labels: dependencies

#90 - Publish source directory for bam-js for source-map

Pull Request - State: closed - Opened by cmdcolin over 2 years ago - 2 comments

#89 - Restore chunk cache for speed improvements

Pull Request - State: closed - Opened by cmdcolin over 2 years ago - 2 comments

#88 - Proposed optimizations to BAM records

Pull Request - State: closed - Opened by cmdcolin over 2 years ago - 4 comments

#87 - Add blocksForRange to BamFile class to fix issue with refId vs refName confusion

Pull Request - State: closed - Opened by cmdcolin over 2 years ago - 1 comment

#86 - htsget auth support

Issue - State: open - Opened by brainstorm over 2 years ago - 4 comments

#85 - Typescript build with esm module in package.json

Pull Request - State: closed - Opened by cmdcolin almost 3 years ago - 3 comments

#84 - fetch size limit error with `pairAcrossChr`

Issue - State: closed - Opened by sehilyi almost 3 years ago - 2 comments

#83 - Missing end position in read mate?

Issue - State: closed - Opened by alexander-veit almost 3 years ago - 2 comments

#82 - Bump tmpl from 1.0.4 to 1.0.5

Pull Request - State: closed - Opened by dependabot[bot] about 3 years ago - 1 comment
Labels: dependencies

#81 - Bump ws from 5.2.2 to 5.2.3

Pull Request - State: closed - Opened by dependabot[bot] about 3 years ago - 1 comment
Labels: dependencies

#80 - Fix typo in CHANGELOG.md

Pull Request - State: closed - Opened by sehilyi about 3 years ago - 1 comment

#79 - Bump path-parse from 1.0.6 to 1.0.7

Pull Request - State: closed - Opened by dependabot[bot] about 3 years ago - 1 comment
Labels: dependencies

#78 - need explanation for usage

Issue - State: closed - Opened by hth4 about 3 years ago - 5 comments

#77 - Bump browserslist from 4.12.0 to 4.16.6

Pull Request - State: closed - Opened by dependabot[bot] over 3 years ago - 2 comments
Labels: dependencies

#76 - Bump hosted-git-info from 2.8.8 to 2.8.9

Pull Request - State: closed - Opened by dependabot[bot] over 3 years ago - 2 comments
Labels: dependencies

#75 - Bump lodash from 4.17.15 to 4.17.21

Pull Request - State: closed - Opened by dependabot[bot] over 3 years ago - 2 comments
Labels: dependencies

#74 - Bump handlebars from 4.7.6 to 4.7.7

Pull Request - State: closed - Opened by dependabot[bot] over 3 years ago - 2 comments
Labels: dependencies

#73 - Bump y18n from 4.0.0 to 4.0.1

Pull Request - State: closed - Opened by dependabot[bot] over 3 years ago - 2 comments
Labels: dependencies

#72 - Yield thread time

Pull Request - State: closed - Opened by cmdcolin over 3 years ago - 3 comments

#71 - Raw qual score accessor function

Pull Request - State: closed - Opened by cmdcolin over 3 years ago - 1 comment

#70 - Add getHeaderText to bamFile

Pull Request - State: closed - Opened by cmdcolin almost 4 years ago

#69 - Bump ini from 1.3.5 to 1.3.7

Pull Request - State: closed - Opened by dependabot[bot] almost 4 years ago - 1 comment
Labels: dependencies

#68 - Port canMergeBlocks for CSI from the existing use in BAI

Pull Request - State: closed - Opened by cmdcolin almost 4 years ago - 1 comment

#67 - Htsget unable to fetch header from some endpoints

Issue - State: open - Opened by cmdcolin almost 4 years ago - 7 comments

#66 - Feature sequence is undefined

Issue - State: closed - Opened by alexander-veit almost 4 years ago - 2 comments

#65 - Fix unsigned vs signed values

Pull Request - State: closed - Opened by cmdcolin about 4 years ago - 1 comment

#64 - Wrong negative number values being reported for some tags

Issue - State: closed - Opened by cmdcolin about 4 years ago
Labels: bug

#63 - Support CG tag for really long reads

Pull Request - State: closed - Opened by cmdcolin about 4 years ago - 1 comment

#61 - Simplifications of unzip

Pull Request - State: closed - Opened by cmdcolin about 4 years ago - 1 comment

#60 - Htsget data fetching

Pull Request - State: closed - Opened by cmdcolin about 4 years ago - 3 comments

#59 - Bump lodash from 4.17.15 to 4.17.19

Pull Request - State: closed - Opened by dependabot[bot] about 4 years ago - 2 comments
Labels: dependencies

#58 - Large amount of short reads bogs jbrowse down

Issue - State: open - Opened by cmdcolin about 4 years ago - 1 comment

#57 - Bump acorn from 5.7.3 to 5.7.4

Pull Request - State: closed - Opened by dependabot[bot] over 4 years ago - 1 comment
Labels: dependencies

#56 - Remove babel from build [work in progress]

Pull Request - State: closed - Opened by cmdcolin over 4 years ago - 3 comments

#55 - Progress bar

Pull Request - State: open - Opened by cmdcolin over 4 years ago
Labels: enhancement

#54 - Improve bam performance

Pull Request - State: closed - Opened by cmdcolin over 4 years ago - 1 comment

#53 - Add unzipChunkSlice method from new @gmod/bgzf-filehandle version

Pull Request - State: closed - Opened by cmdcolin over 4 years ago - 1 comment

#52 - Support BAI index aka BAM index index

Issue - State: open - Opened by cmdcolin over 4 years ago - 1 comment

#51 - add SAM parsing

Issue - State: open - Opened by cmdcolin over 4 years ago

#50 - Bump handlebars from 4.1.2 to 4.5.3

Pull Request - State: closed - Opened by dependabot[bot] almost 5 years ago - 2 comments
Labels: dependencies

#49 - Add ability to read from server that is returning badly non-gzipped data

Pull Request - State: closed - Opened by cmdcolin almost 5 years ago - 2 comments

#48 - Add example test file for failing "ID" tag decode

Pull Request - State: closed - Opened by cmdcolin almost 5 years ago - 2 comments
Labels: bug

#47 - Create fileoffset from "canonical" block being unzipped

Pull Request - State: closed - Opened by cmdcolin almost 5 years ago - 5 comments

#46 - Alt chunk merging

Pull Request - State: closed - Opened by cmdcolin about 5 years ago - 4 comments

#45 - Make limits larger

Pull Request - State: closed - Opened by cmdcolin about 5 years ago - 4 comments

#44 - Restore chunk merging and crc32 feature IDs

Pull Request - State: closed - Opened by cmdcolin about 5 years ago - 2 comments

#43 - Not fetching all reads

Issue - State: closed - Opened by cmdcolin about 5 years ago - 1 comment
Labels: bug

#42 - Use returned buffer instead of passed-in buffer

Pull Request - State: closed - Opened by garrettjstevens about 5 years ago - 2 comments

#41 - Parsing code for split alignments/chimeric reads

Pull Request - State: closed - Opened by cmdcolin about 5 years ago - 2 comments

#40 - Typescript

Pull Request - State: closed - Opened by cmdcolin about 5 years ago

#39 - Refactor unmated resolution and allow streaming results

Pull Request - State: closed - Opened by cmdcolin about 5 years ago - 1 comment

#38 - Investigate split alignment data structures

Issue - State: closed - Opened by cmdcolin about 5 years ago - 1 comment

#37 - Bump eslint-utils from 1.4.0 to 1.4.2

Pull Request - State: closed - Opened by dependabot[bot] about 5 years ago - 2 comments
Labels: dependencies

#36 - Add failing test case and fix for incorrect chunk merges

Pull Request - State: closed - Opened by cmdcolin about 5 years ago - 3 comments

#35 - Add block merging from tabix-js

Pull Request - State: closed - Opened by cmdcolin about 5 years ago - 1 comment

#34 - Port intra-slice merging from tabix

Issue - State: closed - Opened by cmdcolin about 5 years ago - 1 comment

#33 - Bump lodash from 4.17.11 to 4.17.14

Pull Request - State: closed - Opened by dependabot[bot] about 5 years ago - 2 comments
Labels: dependencies

#32 - Bump lodash.template from 4.4.0 to 4.5.0

Pull Request - State: closed - Opened by dependabot[bot] about 5 years ago - 2 comments
Labels: dependencies

#31 - error with local uploaded file

Issue - State: closed - Opened by lidaof over 5 years ago - 4 comments

#30 - Bgzf unpacking

Pull Request - State: closed - Opened by cmdcolin over 5 years ago - 1 comment

#29 - Merge adjacent blocks code could result in large allocation

Issue - State: closed - Opened by cmdcolin over 5 years ago - 2 comments

#28 - Support AN (alternative naming)

Issue - State: open - Opened by cmdcolin over 5 years ago

#27 - question on seq_id of returned feature

Issue - State: closed - Opened by lidaof over 5 years ago - 2 comments

#26 - error in getHeader()

Issue - State: closed - Opened by lidaof over 5 years ago - 7 comments

#25 - use with ES6

Issue - State: closed - Opened by lidaof over 5 years ago - 1 comment

#24 - More aborting

Pull Request - State: closed - Opened by rbuels over 5 years ago - 3 comments

#23 - expand README

Issue - State: open - Opened by rbuels over 5 years ago - 2 comments

#22 - factor out an indexFile base class from bai.js and csi.js

Pull Request - State: closed - Opened by rbuels over 5 years ago - 3 comments

#21 - aborting support

Pull Request - State: closed - Opened by rbuels over 5 years ago - 5 comments

#20 - Indexcov

Pull Request - State: closed - Opened by cmdcolin over 5 years ago - 3 comments

#19 - Add indexCov

Issue - State: closed - Opened by cmdcolin over 5 years ago - 1 comment

#18 - Add check for incorrect BAI files for larger chromosomes

Issue - State: closed - Opened by cmdcolin over 5 years ago - 1 comment

#17 - Babel runtime

Pull Request - State: closed - Opened by garrettjstevens over 5 years ago - 2 comments

#16 - Update eslint-config-prettier to the latest version 🚀

Pull Request - State: closed - Opened by greenkeeper[bot] over 5 years ago - 1 comment
Labels: greenkeeper

#15 - Update eslint-plugin-flowtype-errors to the latest version 🚀

Pull Request - State: closed - Opened by greenkeeper[bot] over 5 years ago - 1 comment
Labels: greenkeeper

#14 - Rewrite record class for less lazy loading

Issue - State: open - Opened by cmdcolin over 5 years ago - 1 comment

#13 - Update dependencies to enable Greenkeeper 🌴

Pull Request - State: closed - Opened by greenkeeper[bot] over 5 years ago - 1 comment
Labels: greenkeeper

#12 - Optimize some view as pairs circumstances

Issue - State: closed - Opened by cmdcolin almost 6 years ago

#11 - Fix for ie11

Pull Request - State: closed - Opened by cmdcolin almost 6 years ago

#10 - add a configurable flag to redispatch and really connect read pairs

Issue - State: closed - Opened by rbuels almost 6 years ago - 10 comments

#9 - Use @gmod/tabix techniques to decode bgzf blocks

Issue - State: closed - Opened by cmdcolin about 6 years ago - 2 comments

#8 - Add more hydrate / snapshot tests

Issue - State: closed - Opened by cmdcolin about 6 years ago - 1 comment

#7 - Avoid large promise.all at end of getRecordsForRange

Issue - State: closed - Opened by cmdcolin about 6 years ago - 3 comments

#6 - CG field

Issue - State: closed - Opened by cmdcolin about 6 years ago

#5 - Restructure record fetching with a callback

Issue - State: closed - Opened by cmdcolin about 6 years ago

#4 - Fails to get range when forcing to use pakoUnzip in node and browser

Issue - State: closed - Opened by cmdcolin about 6 years ago - 2 comments