diff options
| author | Ricardo Wurmus <rekado@elephly.net> | 2021-02-23 19:38:48 +0100 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2021-02-23 19:40:59 +0100 |
| commit | 5d5bbd6fccc2160581740c54c614cb36a51e9126 (patch) | |
| tree | 28fa229650f993f92f861fb64ef1f7bb1ec77546 /gnu/packages | |
| parent | a31a3082458a9fc74b6253097a358d3ee65cfced (diff) | |
gnu: Add star-for-pigx.
This is a follow-up to commit f1f6e49190a11f926af3bef0d45541cabf47c742.
* gnu/packages/bioinformatics.scm (star-for-pigx): New variable.
(pigx-rnaseq, pigx-scrnaseq)[inputs]: Replace star with star-for-pigx.
Diffstat (limited to 'gnu/packages')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 30 |
1 files changed, 28 insertions, 2 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 3890bbc653..1c42e503f2 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -6889,6 +6889,32 @@ sequences.") ;; STAR is licensed under GPLv3 or later; htslib is MIT-licensed. (license license:gpl3+))) +(define-public star-for-pigx + (package + (inherit star) + (name "star") + (version "2.7.3a") + (source (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/alexdobin/STAR") + (commit version))) + (file-name (git-file-name name version)) + (sha256 + (base32 + "1hgiqw5qhs0pc1xazzihcfd92na02xyq2kb469z04y1v51kpvvjq")) + (modules '((guix build utils))) + (snippet + '(begin + (substitute* "source/Makefile" + (("/bin/rm") "rm")) + ;; Remove pre-built binaries and bundled htslib sources. + (delete-file-recursively "bin/MacOSX_x86_64") + (delete-file-recursively "bin/Linux_x86_64") + (delete-file-recursively "bin/Linux_x86_64_static") + (delete-file-recursively "source/htslib") + #t)))))) + (define-public starlong (package (inherit star) (name "starlong") @@ -12587,7 +12613,7 @@ once. This package provides tools to perform Drop-seq analyses.") ("snakemake" ,snakemake) ("fastqc" ,fastqc) ("multiqc" ,multiqc) - ("star" ,star) + ("star" ,star-for-pigx) ("trim-galore" ,trim-galore) ("htseq" ,htseq) ("samtools" ,samtools) @@ -12798,7 +12824,7 @@ methylation and segmentation.") ("pandoc-citeproc" ,pandoc-citeproc) ("samtools" ,samtools) ("snakemake" ,snakemake) - ("star" ,star) + ("star" ,star-for-pigx) ("r-minimal" ,r-minimal) ("r-argparser" ,r-argparser) ("r-cowplot" ,r-cowplot) |