Ecosyste.ms: Issues
An open API service for providing issue and pull request metadata for open source projects.
GitHub / rust-bio/rust-htslib issues and pull requests
#429 - subsetting samples
Issue -
State: open - Opened by brentp 2 months ago
#428 - feat: derive PartialEq and Eq for bam:: and bcf::Format
Pull Request -
State: open - Opened by mbhall88 2 months ago
- 1 comment
#427 - get sequence reads from rust_htslib::bam::record::Seq
Issue -
State: closed - Opened by wdlv 3 months ago
- 2 comments
#426 - chore(master): release 0.47.0
Pull Request -
State: open - Opened by github-actions[bot] 3 months ago
Labels: autorelease: pending
#425 - Compiler issue on AArch64 Linux
Issue -
State: open - Opened by jakobnissen 4 months ago
- 1 comment
#424 - fix: update to hts-sys 2.1.2, which bumps to htslib 1.19
Pull Request -
State: open - Opened by johanneskoester 4 months ago
#423 - error: could not compile `rust-htslib`
Issue -
State: open - Opened by knakamura6222053 4 months ago
#422 - How to access read group info from `Record`?
Issue -
State: open - Opened by Crispy13 4 months ago
- 2 comments
#421 - chore(master): release 0.46.0
Pull Request -
State: closed - Opened by github-actions[bot] 4 months ago
- 1 comment
Labels: autorelease: tagged
#420 - fix: fix building libz-sys
Pull Request -
State: closed - Opened by FelixMoelder 4 months ago
- 2 comments
#419 - feat: making several RecordBuffer methods public
Pull Request -
State: closed - Opened by Addimator 4 months ago
- 1 comment
#418 - feat: Add fasta::build function + FaidxBuildError
Pull Request -
State: closed - Opened by PB-DB 5 months ago
- 1 comment
#417 - fix: Panic on trailing omitted FORMAT records
Pull Request -
State: closed - Opened by fennerm 5 months ago
- 1 comment
#416 - Seek/Tell for BGZF Module
Issue -
State: open - Opened by rmhubley 6 months ago
#415 - fix: Loosen acceptable types to support current linux build on aarch64
Pull Request -
State: closed - Opened by rdeaton-freenome 6 months ago
- 3 comments
#414 - [Feature Request] An option for pileup similar with `truncate` in pysam
Issue -
State: open - Opened by Crispy13 7 months ago
#413 - chore(master): release 0.45.0
Pull Request -
State: closed - Opened by github-actions[bot] 7 months ago
- 1 comment
Labels: autorelease: tagged
#412 - error[E0308]: mismatched types - expected raw pointer `*mut u8` during cross compilation
Issue -
State: closed - Opened by Adoni5 7 months ago
#411 - BCF reader partial unpacking for site-only queries
Issue -
State: open - Opened by bguo068 8 months ago
#410 - feat: add faidx_seq_len function
Pull Request -
State: closed - Opened by pblischak 9 months ago
#409 - Are there some default filters in alignment pileup?
Issue -
State: open - Opened by huangnengCSU 9 months ago
#408 - feat: Add rust_htslib::bcf::index::build
Pull Request -
State: closed - Opened by PB-DB 9 months ago
- 5 comments
#407 - Panic on omitted trailing FORMAT fields
Issue -
State: open - Opened by fennerm 11 months ago
- 2 comments
#406 - no method named `base` found for struct `rust_htslib::bam::Record` in the current scope
Issue -
State: closed - Opened by Crispy13 11 months ago
- 3 comments
#405 - How to operate on Format/Info fields for Records?
Issue -
State: open - Opened by rickymagner 11 months ago
- 2 comments
#404 - Reading bam from s3
Issue -
State: open - Opened by wdecoster 11 months ago
- 3 comments
#403 - Question: multi-threaded reading of BAM files
Issue -
State: open - Opened by rashidalabri 11 months ago
#402 - Qusestion: why CIGAR output write result different with `CigarString`?
Issue -
State: open - Opened by wjwei-handsome 12 months ago
#401 - [bug] Memory leak when using `faidx::Reader::fetch_seq()` ?
Issue -
State: open - Opened by MaelLefeuvre 12 months ago
- 10 comments
#400 - Are there filter options available for pileup?
Issue -
State: open - Opened by Crispy13 12 months ago
- 4 comments
#399 - chore(master): release 0.44.1
Pull Request -
State: closed - Opened by github-actions[bot] about 1 year ago
- 1 comment
Labels: autorelease: tagged
#398 - fix: use correct return value in bcf_get_format and bcf_get_info_values
Pull Request -
State: closed - Opened by Marlin-Na about 1 year ago
- 5 comments
#397 - fix: include doctests in test coverage calculations
Pull Request -
State: closed - Opened by dlaehnemann about 1 year ago
- 2 comments
#396 - fix: makes Header.to_hashmap() not call unwrap.
Pull Request -
State: open - Opened by ArtRand about 1 year ago
- 3 comments
#395 - chore(master): release 0.44.0
Pull Request -
State: closed - Opened by github-actions[bot] about 1 year ago
- 1 comment
Labels: autorelease: tagged
#394 - feat: implement Clone for bcf::Record
Pull Request -
State: closed - Opened by astaric about 1 year ago
- 1 comment
#393 - fix: strand() doesn't need mut.
Pull Request -
State: closed - Opened by brentp about 1 year ago
- 1 comment
#392 - chore(master): release 0.43.1
Pull Request -
State: closed - Opened by github-actions[bot] about 1 year ago
- 1 comment
Labels: autorelease: tagged
#391 - fix: implement Drop for faidx::Reader, destroying the fai handle
Pull Request -
State: closed - Opened by tedil about 1 year ago
- 1 comment
#390 - faidx file not closed when Reader goes out of scope: Too many open files
Issue -
State: closed - Opened by wdecoster about 1 year ago
- 3 comments
#389 - chore(master): release 0.43.0
Pull Request -
State: closed - Opened by github-actions[bot] about 1 year ago
- 1 comment
Labels: autorelease: tagged
#388 - feat: HeaderRecord::push_tag: Value may be owned
Pull Request -
State: closed - Opened by sjackman about 1 year ago
- 2 comments
#387 - feat: Index for `bam::IndexedReader`
Pull Request -
State: closed - Opened by tedil about 1 year ago
- 5 comments
#386 - Accessing the index file from a `bam::IndexedReader`
Issue -
State: closed - Opened by tedil about 1 year ago
- 4 comments
Labels: help wanted, question
#385 - feat: implement htslib basemod api
Pull Request -
State: closed - Opened by jts about 1 year ago
- 25 comments
#384 - fix: Allow empty tags in BAM header
Pull Request -
State: closed - Opened by mrvollger about 1 year ago
- 2 comments
#383 - chore(master): release 0.42.0
Pull Request -
State: closed - Opened by github-actions[bot] over 1 year ago
- 1 comment
Labels: autorelease: tagged
#382 - How to: empty sequence and quality for BAM entries
Issue -
State: closed - Opened by ebioman over 1 year ago
- 2 comments
#381 - faidx: expose n_seq and seqi
Pull Request -
State: closed - Opened by brentp over 1 year ago
- 2 comments
#380 - chore(master): release 0.41.1
Pull Request -
State: closed - Opened by github-actions[bot] over 1 year ago
- 1 comment
Labels: autorelease: tagged
#379 - chore(master): release 0.41.0
Pull Request -
State: closed - Opened by github-actions[bot] over 1 year ago
Labels: autorelease: pending
#378 - chore(master): release rust-htslib 0.41.0
Pull Request -
State: closed - Opened by github-actions[bot] over 1 year ago
- 1 comment
Labels: autorelease: tagged
#377 - feat: Add ability to fetch number of sequences and I-th sequence from FAI index
Pull Request -
State: closed - Opened by jamorrison over 1 year ago
- 7 comments
#376 - ci: Pin tarpaulin version
Pull Request -
State: closed - Opened by fxwiegand over 1 year ago
#375 - feat: Revised calculation of leading- and trailing-softclips
Pull Request -
State: closed - Opened by FelixMoelder over 1 year ago
- 2 comments
#374 - feat: Implement htslib basemod api
Pull Request -
State: closed - Opened by jts over 1 year ago
- 4 comments
#373 - Question: VCF file indexing function
Issue -
State: open - Opened by holtjma over 1 year ago
#372 - feat: exposes CigarStringView pos
Pull Request -
State: closed - Opened by brentp over 1 year ago
- 2 comments
#371 - `bgzf::Reader::set_thread_pool` causes the bgzf Reader to hang if the thread pool goes out of scope
Issue -
State: open - Opened by ThomasHickman over 1 year ago
#370 - Windows compatibility
Issue -
State: open - Opened by jakobnissen over 1 year ago
#369 - Building conda recipe with rust-htslib as dependency: failure on osx
Issue -
State: open - Opened by wdecoster over 1 year ago
- 1 comment
#368 - chore(master): release rust-htslib 0.40.2
Pull Request -
State: closed - Opened by github-actions[bot] over 1 year ago
- 2 comments
Labels: autorelease: tagged
#367 - chore(master): release hts-sys 2.0.3
Pull Request -
State: closed - Opened by github-actions[bot] over 1 year ago
- 1 comment
Labels: autorelease: tagged
#366 - perf: update htslib and corresponding bindings to 1.16
Pull Request -
State: closed - Opened by johanneskoester over 1 year ago
- 5 comments
#365 - bam reader won't close files and cause 'too many open files' error.
Issue -
State: open - Opened by y9c almost 2 years ago
#364 - chore(master): release rust-htslib 0.40.1
Pull Request -
State: closed - Opened by github-actions[bot] almost 2 years ago
- 1 comment
Labels: autorelease: tagged
#363 - fix: fixed fn to_hashmap so it can avoid an error when @CO tag appeared
Pull Request -
State: closed - Opened by shohei-kojima almost 2 years ago
- 13 comments
#362 - Plans to support modified bases (MM and ML tags)?
Issue -
State: closed - Opened by mrvollger almost 2 years ago
- 3 comments
#361 - fix: bam::Record:new should return a valid record
Pull Request -
State: open - Opened by nh13 about 2 years ago
- 7 comments
#360 - bcf::header::rid2name outputs incorrect name
Issue -
State: closed - Opened by ngleadall about 2 years ago
- 1 comment
#359 - fastest way to locate reads which contain specify kemr use rust-htslib??
Issue -
State: closed - Opened by nihilee about 2 years ago
- 4 comments
#358 - refactor: move source into subfolder
Pull Request -
State: open - Opened by johanneskoester about 2 years ago
- 3 comments
#357 - chore(master): release rust-htslib 0.40.0
Pull Request -
State: closed - Opened by github-actions[bot] about 2 years ago
- 1 comment
Labels: autorelease: tagged
#356 - chore: release rust-htslib 0.39.5
Pull Request -
State: closed - Opened by github-actions[bot] about 2 years ago
- 2 comments
Labels: autorelease: tagged
#355 - chore: release rust-htslib 0.39.4
Pull Request -
State: closed - Opened by github-actions[bot] about 2 years ago
- 1 comment
Labels: autorelease: tagged
#354 - fix: Update Cargo.toml
Pull Request -
State: closed - Opened by rob-p about 2 years ago
- 1 comment
#353 - publishing updated versions to crates.io
Issue -
State: closed - Opened by rob-p about 2 years ago
- 2 comments
#352 - Compile issue on OSX / M1
Issue -
State: closed - Opened by rob-p about 2 years ago
- 2 comments
#351 - Build portability is complicated by recent zlib-ng updates
Issue -
State: open - Opened by ctsa about 2 years ago
#350 - Passing a INFO tag as a FORMAT tag failed silently instead of triggering an error
Issue -
State: open - Opened by essut about 2 years ago
- 1 comment
#349 - feat: Add wrapper of BGZF writer
Pull Request -
State: closed - Opened by jemma-nelson over 2 years ago
- 1 comment
#348 - Question about reference sequence
Issue -
State: closed - Opened by nihilee over 2 years ago
- 1 comment
#347 - Support for BGZF writer?
Issue -
State: closed - Opened by jemma-nelson over 2 years ago
- 2 comments
#346 - Modify allele of a vcf entry
Issue -
State: closed - Opened by ebioman over 2 years ago
- 1 comment
#345 - fix: Workaround Non-Threadsafe Use of `Rc` in `bam::record::Record`
Pull Request -
State: open - Opened by jch-13 over 2 years ago
- 1 comment
#344 - Most recent releases not published on crates.io
Issue -
State: closed - Opened by jch-13 over 2 years ago
#343 - Merge VCF headers
Issue -
State: open - Opened by wdesouza over 2 years ago
- 2 comments
#342 - How should bcf::Record::push_info_float work?
Issue -
State: open - Opened by xosxos over 2 years ago
- 1 comment
#341 - build: Upgrade libdeflater
Pull Request -
State: closed - Opened by sstadick over 2 years ago
- 1 comment
#340 - Upgrade libdeflater
Issue -
State: closed - Opened by sstadick over 2 years ago
#339 - Problem creating new BAM records (SAM=Segfault,BAM=silent failure)
Issue -
State: open - Opened by ebioman over 2 years ago
- 8 comments
#338 - chore: release rust-htslib 0.39.3
Pull Request -
State: closed - Opened by github-actions[bot] over 2 years ago
- 1 comment
Labels: autorelease: tagged
#337 - fix: change the type to c_char so it can be compiled for aarch64
Pull Request -
State: closed - Opened by cschin over 2 years ago
- 8 comments
#336 - chore: Exclude test files from crate package.
Pull Request -
State: closed - Opened by adam-azarchs over 2 years ago
- 1 comment
#335 - Add update_aux function to BAM records.
Issue -
State: open - Opened by ghuls over 2 years ago
- 2 comments
#334 - Quickest way for pileup at known position?
Issue -
State: open - Opened by ebioman over 2 years ago
#333 - hts-sys can not be installed
Issue -
State: closed - Opened by y9c almost 3 years ago
- 5 comments
#332 - build: update htslib & fix build.rs
Pull Request -
State: closed - Opened by pmarks almost 3 years ago
- 2 comments
#331 - chore: release rust-htslib 0.39.2
Pull Request -
State: closed - Opened by github-actions[bot] almost 3 years ago
- 1 comment
Labels: autorelease: tagged
#330 - chore: release hts-sys 2.0.2
Pull Request -
State: closed - Opened by github-actions[bot] almost 3 years ago
- 1 comment
Labels: autorelease: tagged