diff options
| author | Efraim Flashner <efraim@flashner.co.il> | 2021-01-14 10:16:20 +0200 |
|---|---|---|
| committer | Efraim Flashner <efraim@flashner.co.il> | 2021-01-14 20:43:31 +0200 |
| commit | 2051be4f4cd526fb445e826d655afa40f8f4a7e5 (patch) | |
| tree | 5c95c3c96f48014b41a267e90c3461d222c2ca15 /gnu/packages/bioinformatics.scm | |
| parent | f58e491fb837ae4344689c1cefdc1b6e582c3015 (diff) | |
gnu: gemma: Enable tests.
* gnu/packages/bioinformatics.scm (gemma)[source]: Add snippet to remove
bundled sources.
[native-inputs]: Add catch-framework2-1, perl, shunit2, which.
[arguments]: Don't disable tests. Override 'check phase.
Diffstat (limited to 'gnu/packages/bioinformatics.scm')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 22 |
1 files changed, 19 insertions, 3 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 70696c189a..84a9a4d208 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -3572,12 +3572,22 @@ comment or quality sections.") (file-name (git-file-name name version)) (sha256 (base32 - "1p8a7kkfn1mmrg017aziy544aha8i9h6wd1x2dk3w2794wl33qb7")))) + "1p8a7kkfn1mmrg017aziy544aha8i9h6wd1x2dk3w2794wl33qb7")) + (modules '((guix build utils))) + (snippet + '(begin + (delete-file-recursively "contrib") + #t)))) (build-system gnu-build-system) (inputs `(("gsl" ,gsl) ("openblas" ,openblas) ("zlib" ,zlib))) + (native-inputs + `(("catch" ,catch-framework2-1) + ("perl" ,perl) + ("shunit2" ,shunit2) + ("which" ,which))) (arguments `(#:phases (modify-phases %standard-phases @@ -3589,12 +3599,18 @@ comment or quality sections.") (("/usr/local/opt/openblas") (assoc-ref inputs "openblas"))) #t)) + (replace 'check + (lambda* (#:key tests? #:allow-other-keys) + (when tests? + ;; 'make slow-check' expects shunit2-2.0.3. + (with-directory-excursion "test" + (invoke "./test_suite.sh")) + #t))) (replace 'install (lambda* (#:key outputs #:allow-other-keys) (install-file "bin/gemma" (string-append (assoc-ref outputs "out") "/bin")) - #t))) - #:tests? #f)) ; no tests included yet + #t))))) (home-page "https://github.com/genetics-statistics/GEMMA") (synopsis "Tool for genome-wide efficient mixed model association") (description |