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gnu: pigx-rnaseq: Update to 0.0.13.

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* gnu/packages/bioinformatics.scm (pigx-rnaseq): Update to 0.0.13.
[arguments]: Remove obsolete substitutions.
[inputs]: Remove fastqc and trim-galore; add hisat2 and fastp.
This commit is contained in:
Ricardo Wurmus 2021-06-05 00:33:00 +02:00
parent 7382aa00b8
commit f98837a6ba
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1 changed files with 5 additions and 7 deletions
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gnu/packages/bioinformatics.scm
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@ -10355,7 +10355,7 @@ once. This package provides tools to perform Drop-seq analyses.")
(define-public pigx-rnaseq (define-public pigx-rnaseq
(package (package
(name "pigx-rnaseq") (name "pigx-rnaseq")
(version "0.0.10") (version "0.0.13")
(source (origin (source (origin
(method url-fetch) (method url-fetch)
(uri (string-append "https://github.com/BIMSBbioinfo/pigx_rnaseq/" (uri (string-append "https://github.com/BIMSBbioinfo/pigx_rnaseq/"
@ -10363,7 +10363,7 @@ once. This package provides tools to perform Drop-seq analyses.")
"/pigx_rnaseq-" version ".tar.gz")) "/pigx_rnaseq-" version ".tar.gz"))
(sha256 (sha256
(base32 (base32
"0z3hr120wk2vrlmlpz1vp3n9wy3rq4y2mnzh2vf08qgqn2xfdwcw")))) "0z9zid2c8q16lfzlnjd63nparknhv31qgv4h79algmvhkakm2pgk"))))
(build-system gnu-build-system) (build-system gnu-build-system)
(arguments (arguments
`(#:parallel-tests? #f ; not supported `(#:parallel-tests? #f ; not supported
@ -10373,19 +10373,17 @@ once. This package provides tools to perform Drop-seq analyses.")
(add-after 'unpack 'disable-resource-intensive-test (add-after 'unpack 'disable-resource-intensive-test
(lambda _ (lambda _
(substitute* "Makefile.in" (substitute* "Makefile.in"
(("(^ tests/test_trim_galore/test.sh).*" _ m) m)
(("^ tests/test_multiqc/test.sh") "") (("^ tests/test_multiqc/test.sh") "")
(("^ test.sh") "")) (("^ test.sh") "")))))))
#t)))))
(inputs (inputs
`(("coreutils" ,coreutils) `(("coreutils" ,coreutils)
("sed" ,sed) ("sed" ,sed)
("gzip" ,gzip) ("gzip" ,gzip)
("snakemake" ,snakemake) ("snakemake" ,snakemake)
("fastqc" ,fastqc)
("multiqc" ,multiqc) ("multiqc" ,multiqc)
("star" ,star-for-pigx) ("star" ,star-for-pigx)
("trim-galore" ,trim-galore) ("hisat2" ,hisat2)
("fastp" ,fastp)
("htseq" ,htseq) ("htseq" ,htseq)
("samtools" ,samtools) ("samtools" ,samtools)
("r-minimal" ,r-minimal) ("r-minimal" ,r-minimal)