diff options
Diffstat (limited to 'gnu/packages/bioinformatics.scm')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 17 |
1 files changed, 14 insertions, 3 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 13bd7b5997..3455029ed1 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -1475,9 +1475,20 @@ consensus sequences.") (add-before 'build 'build-libssw (lambda _ (with-directory-excursion "libs/striped_smith_waterman" - (invoke "make" "libssw.so"))))))) - (inputs - `(("python-biopython" ,python-biopython) + (invoke "make" "libssw.so")))) + (add-before 'build 'fix-reference-to-ccs + (lambda* (#:key inputs #:allow-other-keys) + (substitute* "CIRI_long/pipeline.py" + (("'ccs -i") + (string-append "'" + (assoc-ref inputs "circtools") "/bin/ccs" + " -i"))) + ;; yuck! + (substitute* "CIRI_long/main.py" + (("os.chmod\\(lib_path.*") ""))))))) + (inputs + `(("circtools" ,circtools) + ("python-biopython" ,python-biopython) ("python-bwapy" ,python-bwapy) ("python-cython" ,python-cython) ("python-levenshtein" ,python-levenshtein) |