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| author | Roel Janssen <roel@gnu.org> | 2020-11-13 16:14:01 +0100 |
|---|---|---|
| committer | Roel Janssen <roel@gnu.org> | 2020-11-13 16:14:01 +0100 |
| commit | ecc309c14202161eba28d498649a7ed53e89aaae (patch) | |
| tree | 35cab778b4c57472bc10fa6f81afa00dcd7b4115 /gnu/packages/bioinformatics.scm | |
| parent | 3a15847685eda86d16ac79900e731bac1904482e (diff) | |
| download | guix-ecc309c14202161eba28d498649a7ed53e89aaae.tar.gz guix-ecc309c14202161eba28d498649a7ed53e89aaae.zip | |
gnu: Add bcftools-1.9.
* gnu/packages/bioinformatics.scm (bcftools-1.9): New variable.
Diffstat (limited to 'gnu/packages/bioinformatics.scm')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 26 |
1 files changed, 24 insertions, 2 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 8ad38ac498..22da6ac3ff 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -354,6 +354,28 @@ transparently with both VCFs and BCFs, both uncompressed and BGZF-compressed.") ;; The sources are dual MIT/GPL, but becomes GPL-only when USE_GPL=1. (license (list license:gpl3+ license:expat)))) +(define-public bcftools-1.9 + (package (inherit bcftools) + (name "bcftools") + (version "1.9") + (source (origin + (method url-fetch) + (uri (string-append "https://github.com/samtools/bcftools/" + "releases/download/" + version "/bcftools-" version ".tar.bz2")) + (sha256 + (base32 + "1j3h638i8kgihzyrlnpj82xg1b23sijibys9hvwari3fy7kd0dkg")) + (modules '((guix build utils))) + (snippet '(begin + ;; Delete bundled htslib. + (delete-file-recursively "htslib-1.9") + #t)))) + (build-system gnu-build-system) + (native-inputs + `(("htslib" ,htslib-1.9) + ("perl" ,perl))))) + (define-public bedops (package (name "bedops") @@ -1955,7 +1977,7 @@ multiple sequence alignments.") ;; FIXME: tests keep timing out on some systems. (invoke "nosetests" "-v" "--processes" "1"))))))) (propagated-inputs - `(("htslib" ,htslib))) ; Included from installed header files. + `(("htslib" ,htslib-1.9))) ; Included from installed header files. (inputs `(("ncurses" ,ncurses) ("curl" ,curl) @@ -1963,7 +1985,7 @@ multiple sequence alignments.") (native-inputs `(("python-cython" ,python-cython) ;; Dependencies below are are for tests only. - ("samtools" ,samtools) + ("samtools" ,samtools-1.9) ("bcftools" ,bcftools) ("python-nose" ,python-nose))) (home-page "https://github.com/pysam-developers/pysam") |