diff options
Diffstat (limited to 'gnu/packages/bioinformatics.scm')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 16 |
1 files changed, 8 insertions, 8 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index a6eda0c280..86270ecc75 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -2263,9 +2263,9 @@ gene predictor designed to work with assembled, aligned RNA-seq transcripts.") (lambda* (#:key inputs outputs #:allow-other-keys) ;; Make sure 'couger' runs with the correct PYTHONPATH. (let* ((out (assoc-ref outputs "out")) - (path (getenv "PYTHONPATH"))) + (path (getenv "GUIX_PYTHONPATH"))) (wrap-program (string-append out "/bin/couger") - `("PYTHONPATH" ":" prefix (,path)))) + `("GUIX_PYTHONPATH" ":" prefix (,path)))) #t))))) (inputs `(("python" ,python-2) @@ -10696,7 +10696,7 @@ matplotlib.use('Agg') " line))) ;; Make sure GESS has all modules in its path (wrap-script (string-append target "GESS.py") - `("PYTHONPATH" ":" = (,target ,(getenv "PYTHONPATH")))) + `("GUIX_PYTHONPATH" ":" = (,target ,(getenv "GUIX_PYTHONPATH")))) (mkdir-p bin) (symlink (string-append target "GESS.py") (string-append bin "GESS.py")) @@ -12871,11 +12871,11 @@ conversions, region filtering, FASTA sequence extraction and more.") (lambda* (#:key outputs #:allow-other-keys) (let* ((out (assoc-ref outputs "out")) (bin (string-append out "/bin")) - (path (getenv "PYTHONPATH"))) + (path (getenv "GUIX_PYTHONPATH"))) (for-each (lambda (script) (install-file script bin) (wrap-program (string-append bin "/" script) - `("PYTHONPATH" ":" prefix (,path)))) + `("GUIX_PYTHONPATH" ":" prefix (,path)))) '("cmp_bed.py" "find_circ.py" "maxlength.py" @@ -13817,10 +13817,10 @@ datasets.") (add-after 'install 'wrap-program (lambda* (#:key inputs outputs #:allow-other-keys) (let* ((out (assoc-ref outputs "out")) - (path (getenv "PYTHONPATH"))) + (path (getenv "GUIX_PYTHONPATH"))) (wrap-program (string-append out "/share/filtlong/scripts/histogram.py") - `("PYTHONPATH" ":" prefix (,path)))) + `("GUIX_PYTHONPATH" ":" prefix (,path)))) #t)) (add-before 'check 'patch-tests (lambda _ @@ -13894,7 +13894,7 @@ choosing which reads pass the filter.") (add-after 'install 'wrap-programs (lambda* (#:key outputs #:allow-other-keys) (for-each (lambda (file) - (wrap-program file `("PYTHONPATH" ":" prefix (,path)))) + (wrap-program file `("GUIX_PYTHONPATH" ":" prefix (,path)))) (find-files "/share/nanopolish/scripts" "\\.py")) (for-each (lambda (file) (wrap-program file `("PERL5LIB" ":" prefix (,path)))) |