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gnu: Add star-for-pigx.

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This is a follow-up to commit f1f6e49190.

* gnu/packages/bioinformatics.scm (star-for-pigx): New variable.
(pigx-rnaseq, pigx-scrnaseq)[inputs]: Replace star with star-for-pigx.
This commit is contained in:
Ricardo Wurmus 2021-02-23 19:38:48 +01:00
parent a31a308245
commit 5d5bbd6fcc
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GPG key ID: 197A5888235FACAC
1 changed files with 28 additions and 2 deletions
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gnu/packages/bioinformatics.scm
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@ -6889,6 +6889,32 @@ (define-public star
;; 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 @@ (define-public pigx-rnaseq
("snakemake" ,snakemake)
("fastqc" ,fastqc)
("multiqc" ,multiqc)
("star" ,star)
("star" ,star-for-pigx)
("trim-galore" ,trim-galore)
("htseq" ,htseq)
("samtools" ,samtools)
@ -12798,7 +12824,7 @@ (define-public pigx-scrnaseq
("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)