diff options
| author | Ricardo Wurmus <rekado@elephly.net> | 2023-05-14 13:21:59 +0200 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2023-05-14 13:21:59 +0200 |
| commit | 7e303658d70e6af97d5bf967db6ee17e4cf23871 (patch) | |
| tree | 560114f742c9d5bd2f5d9938e9ee354a8273ff6e /gnu | |
| parent | 68ccd1a0d800d824bc5163e206f9227596f7da32 (diff) | |
gnu: codingquarry: Use G-expression.
* gnu/packages/bioinformatics.scm (codingquarry)[arguments]: Use G-expression
to simplify 'install phase. Install files to /share/codingquarry prefix.
[native-search-paths]: Adjust prefix.
[native-inputs]: Move python-2 from here...
[inputs]: ...to here.
Diffstat (limited to 'gnu')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 38 |
1 files changed, 19 insertions, 19 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 990bdb28da..86696d7c14 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -3446,31 +3446,31 @@ setup")))) "0115hkjflsnfzn36xppwf9h9avfxlavr43djqmshkkzbgjzsz60i")))) (build-system gnu-build-system) (arguments - '(#:tests? #f ; no "check" target - #:phases - (modify-phases %standard-phases - (delete 'configure) - (replace 'install - (lambda* (#:key outputs #:allow-other-keys) - (let* ((out (assoc-ref outputs "out")) - (bin (string-append out "/bin")) - (doc (string-append out "/share/doc/codingquarry"))) - (install-file "INSTRUCTIONS.pdf" doc) - (copy-recursively "QuarryFiles" - (string-append out "/QuarryFiles")) - (install-file "CodingQuarry" bin) - (install-file "CufflinksGTF_to_CodingQuarryGFF3.py" bin)) - #t))))) - (inputs (list openmpi)) + (list + #:tests? #f ;no "check" target + #:phases + #~(modify-phases %standard-phases + (delete 'configure) + (replace 'install + (lambda _ + (let ((bin (string-append #$output "/bin")) + (doc (string-append #$output "/share/doc/codingquarry"))) + (install-file "INSTRUCTIONS.pdf" doc) + (copy-recursively "QuarryFiles" + (string-append #$output + "/share/codingquarry/QuarryFiles")) + (install-file "CodingQuarry" bin) + (install-file "CufflinksGTF_to_CodingQuarryGFF3.py" bin))))))) + ;; TODO: This package also needs a Python 2 variant of biopython + (inputs (list openmpi python-2)) ;Only Python 2 is supported (native-search-paths (list (search-path-specification (variable "QUARRY_PATH") - (files '("QuarryFiles"))))) - (native-inputs `(("python" ,python-2))) ; Only Python 2 is supported + (files '("share/codingquarry/QuarryFiles"))))) + (home-page "https://sourceforge.net/projects/codingquarry/") (synopsis "Fungal gene predictor") (description "CodingQuarry is a highly accurate, self-training GHMM fungal gene predictor designed to work with assembled, aligned RNA-seq transcripts.") - (home-page "https://sourceforge.net/projects/codingquarry/") (license license:gpl3+))) (define-public clustal-omega |