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| author | Ricardo Wurmus <rekado@elephly.net> | 2022-06-01 12:18:00 +0200 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2022-06-01 12:19:48 +0200 |
| commit | 6e54ce9ca9b172189ab46eb14147304ff9cfa35b (patch) | |
| tree | 145959f536f8e17975f4ef6f7d128da87cf01efe /gnu/packages/bioinformatics.scm | |
| parent | 75af73e1b7ac58770122d8831faa3a8158638bb0 (diff) | |
| download | guix-patches-6e54ce9ca9b172189ab46eb14147304ff9cfa35b.tar guix-patches-6e54ce9ca9b172189ab46eb14147304ff9cfa35b.tar.gz | |
gnu: pigx-chipseq: Update to 0.1.0.
* gnu/packages/bioinformatics.scm (pigx-chipseq): Update to 0.1.0.
[source]: Remove patch.
[arguments]: Remove 'autoreconf phase.
[native-inputs]: Remove autoconf and automake.
* gnu/packages/patches/pigx-chipseq-no-citeproc.patch: Remove file.
* gnu/local.mk (dist_patch_DATA): Remove patch.
Diffstat (limited to 'gnu/packages/bioinformatics.scm')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 19 |
1 files changed, 3 insertions, 16 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 1ffac1a0ca..f2800d3163 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -10526,7 +10526,7 @@ expression report comparing samples in an easily configurable manner.") (define-public pigx-chipseq (package (name "pigx-chipseq") - (version "0.0.53") + (version "0.1.0") (source (origin (method url-fetch) (uri (string-append "https://github.com/BIMSBbioinfo/pigx_chipseq/" @@ -10534,25 +10534,12 @@ expression report comparing samples in an easily configurable manner.") "/pigx_chipseq-" version ".tar.gz")) (sha256 (base32 - "0c6npx35sszycf059w1x1k4k9hq1qqxny0i4p57q1188czr4561h")) - (patches (search-patches "pigx-chipseq-no-citeproc.patch")))) + "008n6drj9q5av86xihxlj4py2c9p3c5z5ld89c3bksrp77zxiy67")))) (build-system gnu-build-system) (arguments `(#:tests? #f ; parts of the tests rely on access to the network #:phases (modify-phases %standard-phases - (add-before 'bootstrap 'autoreconf - (lambda _ - ;; This was fixed in commit - ;; 0b1c9f7f2e4d0ff601f1de95ab8b2953f4d5dbc7, but there is no - ;; release with this fix. - (call-with-output-file "VERSION" - (lambda (port) (display ,version port))) - ;; See https://github.com/BIMSBbioinfo/pigx_chipseq/issues/176 - (substitute* "m4/ax_r_package.m4" - (("if\\(is.na\\(packageDescription\\(\"PKG\"\\)\\)\\)") - "if(system.file(package=\"PKG\") == \"\")")) - (invoke "autoreconf" "-vif"))) (add-before 'configure 'set-PYTHONPATH (lambda _ (setenv "PYTHONPATH" (getenv "GUIX_PYTHONPATH"))))))) @@ -10606,7 +10593,7 @@ expression report comparing samples in an easily configurable manner.") bedtools kentutils)) (native-inputs - (list autoconf automake python-pytest)) + (list 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 |