diff options
Diffstat (limited to 'gnu/packages/bioinformatics.scm')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 22 |
1 files changed, 6 insertions, 16 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index a7356743f0..f89c60b8cd 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -11449,7 +11449,7 @@ applications for tackling some common problems in a user-friendly way.") ("python2-numpy" ,python2-numpy) ("python2-matplotlib" ,python2-matplotlib) ("python2-pysam" ,python2-pysam))) - (home-page "http://3dgenomes.github.io/TADbit/") + (home-page "https://3dgenomes.github.io/TADbit/") (synopsis "Analyze, model, and explore 3C-based data") (description "TADbit is a complete Python library to deal with all steps to analyze, @@ -12725,7 +12725,7 @@ contains #:phases (modify-phases %standard-phases ;; FIXME: fails with "java.io.FileNotFoundException: - ;; /gnu/store/q76y0ximcziplgfpbn26kbw4h3s14f33-dropseq-tools-1.13/share/java/lib/biojava-alignment.jar" + ;; /gnu/store/…-dropseq-tools-1.13/share/java/lib/biojava-alignment.jar" (delete 'generate-jar-indices) ;; All dependencies must be linked to "lib", because that's where ;; they will be searched for when the Class-Path property of the @@ -12906,7 +12906,7 @@ expression report comparing samples in an easily configurable manner.") (define-public pigx-chipseq (package (name "pigx-chipseq") - (version "0.0.16") + (version "0.0.17") (source (origin (method url-fetch) (uri (string-append "https://github.com/BIMSBbioinfo/pigx_chipseq/" @@ -12914,20 +12914,10 @@ expression report comparing samples in an easily configurable manner.") "/pigx_chipseq-" version ".tar.gz")) (sha256 (base32 - "0s53840z53pih0jkllmcfb2la7c36zxmf229fshhyq8n6a2hgr8f")))) + "1c0x5lswvc8v9fw4iynl5rcfs7h7clzp4hqdnl65ia7rk35n4zg9")))) (build-system gnu-build-system) - (arguments - `(#:tests? #f ; parts of the tests rely on access to the network - #:phases - (modify-phases %standard-phases - (add-after 'install 'wrap-executable - ;; Make sure the executable finds all R modules. - (lambda* (#:key inputs outputs #:allow-other-keys) - (let ((out (assoc-ref outputs "out"))) - (wrap-program (string-append out "/bin/pigx-chipseq") - `("R_LIBS_SITE" ":" = (,(getenv "R_LIBS_SITE"))) - `("PYTHONPATH" ":" = (,(getenv "PYTHONPATH"))))) - #t))))) + ;; parts of the tests rely on access to the network + (arguments '(#:tests? #f)) (inputs `(("grep" ,grep) ("coreutils" ,coreutils) |