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| author | Lars-Dominik Braun <lars@6xq.net> | 2021-10-06 14:08:53 +0200 |
|---|---|---|
| committer | Lars-Dominik Braun <lars@6xq.net> | 2021-10-08 09:13:54 +0200 |
| commit | 07f2e4993b5b80008273de0bb756659321e74183 (patch) | |
| tree | 8c8d779d41e09e5b4929bdbf2ee10ce4f32b9431 /gnu/packages/bioinformatics.scm | |
| parent | e51a3f4a727d8bd74ccef6322a422c7e8a421394 (diff) | |
| download | guix-patches-07f2e4993b5b80008273de0bb756659321e74183.tar guix-patches-07f2e4993b5b80008273de0bb756659321e74183.tar.gz | |
gnu: pigx-chipseq: Remove dependency on pandoc-citeproc.
* gnu/packages/patches/pigx-chipseq-no-citeproc.patch: Add patch.
* gnu/local.mk: Register it.
* gnu/packages/bioinformatics.scm (pigx-chipseq)[source]: Use it.
[native-inputs]: Add automake/autoconf.
Diffstat (limited to 'gnu/packages/bioinformatics.scm')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 16 |
1 files changed, 12 insertions, 4 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index ed4470e313..150bbc361f 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -10567,10 +10567,16 @@ expression report comparing samples in an easily configurable manner.") "/pigx_chipseq-" version ".tar.gz")) (sha256 (base32 - "0c6npx35sszycf059w1x1k4k9hq1qqxny0i4p57q1188czr4561h")))) + "0c6npx35sszycf059w1x1k4k9hq1qqxny0i4p57q1188czr4561h")) + (patches (search-patches "pigx-chipseq-no-citeproc.patch")))) (build-system gnu-build-system) - ;; parts of the tests rely on access to the network - (arguments '(#:tests? #f)) + (arguments + `(#:tests? #f ; parts of the tests rely on access to the network + #:phases + (modify-phases %standard-phases + (add-before 'bootstrap 'autoreconf + (lambda _ + (invoke "autoreconf" "-vif")))))) (inputs `(("grep" ,grep) ("coreutils" ,coreutils) @@ -10621,7 +10627,9 @@ expression report comparing samples in an easily configurable manner.") ("bedtools" ,bedtools) ("kentutils" ,kentutils))) (native-inputs - `(("python-pytest" ,python-pytest))) + `(("autoconf" ,autoconf) + ("automake" ,automake) + ("python-pytest" ,python-pytest))) (home-page "https://bioinformatics.mdc-berlin.de/pigx/") (synopsis "Analysis pipeline for ChIP sequencing experiments") (description "PiGX ChIPseq is an analysis pipeline for preprocessing, peak |