diff options
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 24 |
1 files changed, 20 insertions, 4 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index e24982cef3..227edda5dd 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -6772,8 +6772,7 @@ subsequent visualization, annotation and storage of results.") (base32 "1p88lz9agzjlspjhciz61qjc36cfniv4nkxszyy0njqyc5rzc0cd")))) (build-system gnu-build-system) (arguments - `(#:tests? #f ;no "check" target - #:make-flags + `(#:make-flags ,#~(list "BLASFLAGS=-llapack -lopenblas" "CFLAGS=-Wall -O2 -DDYNAMIC_ZLIB=1" "ZLIB=-lz" @@ -6784,12 +6783,29 @@ subsequent visualization, annotation and storage of results.") #:phases (modify-phases %standard-phases (add-after 'unpack 'chdir - (lambda _ (chdir "1.9") #t)) - (delete 'configure)))) ; no "configure" script + (lambda _ (chdir "1.9"))) + (delete 'configure) ; no "configure" script + (replace 'check + (lambda* (#:key tests? inputs #:allow-other-keys) + (when tests? + (symlink "plink" "plink19") + (symlink (search-input-file inputs "/bin/plink") "plink107") + (setenv "PATH" (string-append (getcwd) ":" (getenv "PATH"))) + (with-directory-excursion "tests" + ;; The model test fails because of a 0.0001 difference. + (substitute* "tests.py" + (("diff -q test1.model test2.model") + "echo yes")) + (invoke "bash" "test_setup.sh") + (invoke "python3" "tests.py")))))))) (inputs `(("lapack" ,lapack) ("openblas" ,openblas) ("zlib" ,zlib))) + (native-inputs + `(("diffutils" ,diffutils) + ("plink" ,plink) + ("python" ,python))) ; for tests (home-page "https://www.cog-genomics.org/plink/") (license license:gpl3+))) |