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| author | pjotrp | 2017-01-24 09:27:32 +0000 |
|---|---|---|
| committer | pjotrp | 2017-01-24 09:27:32 +0000 |
| commit | f8c952c5ae8594fcbd95c680ce3b6bcbfe563a6f (patch) | |
| tree | 77c54ff01d8e3cab80279a4cd19661b692f129d4 /gn | |
| parent | f0d73d5582d225b997eb8407cce2e5e8b161ade5 (diff) | |
| download | guix-bioinformatics-f8c952c5ae8594fcbd95c680ce3b6bcbfe563a6f.tar.gz | |
Sambamba uses lz4.so, so the source download is no longer needed.
Tested view of both BAM and CRAM works.
Diffstat (limited to 'gn')
| -rw-r--r-- | gn/packages/bioinformatics.scm | 24 |
1 files changed, 12 insertions, 12 deletions
diff --git a/gn/packages/bioinformatics.scm b/gn/packages/bioinformatics.scm index c920d30..701ac1d 100644 --- a/gn/packages/bioinformatics.scm +++ b/gn/packages/bioinformatics.scm @@ -936,25 +936,25 @@ association studies (GWAS).") "05nlhwjw17igcwiz4pq0r4f8flrqcy4065fhx4nhpc0g65p70mi5")))) (build-system gnu-build-system) (outputs '("out" - "debug")) ;retain debug symbols + "debug")) ;retain debug symbols - note that -O2 is used (native-inputs `(("ldc" ,ldc) ("lz4" ,lz4) ("coreutils" ,coreutils) ; for env - ("rdmd" ,rdmd) + ;; ("rdmd" ,rdmd) ("zlib" ,zlib) ("perl" ,perl) ; Needed for htslib ("ruby" ,ruby) ; Needed for htslib ("python" ,python-2) ; Needed for htslib ("gcc" ,gcc) ("which" ,which) - ("lz4-src" - ,(origin - (method url-fetch) - (uri "https://github.com/Cyan4973/lz4/archive/160661c7a4cbf805f4af74d2e3932a17a66e6ce7.tar.gz") - (file-name (string-append "lz4-" (string-take commit 7) ".tar.gz" )) - (sha256 - (base32 "131nnbsd5dh7c8sdqzc9kawh3mi0qi4qxznv7zhzfszlx4g2fd20")))) + ; ("lz4-src" + ; ,(origin + ; (method url-fetch) + ; (uri "https://github.com/Cyan4973/lz4/archive/160661c7a4cbf805f4af74d2e3932a17a66e6ce7.tar.gz") + ; (file-name (string-append "lz4-" (string-take commit 7) ".tar.gz" )) + ; (sha256 + ; (base32 "131nnbsd5dh7c8sdqzc9kawh3mi0qi4qxznv7zhzfszlx4g2fd20")))) ("htslib-src" ,(origin (method url-fetch) @@ -988,9 +988,9 @@ association studies (GWAS).") (and (with-directory-excursion "htslib" (zero? (system* "tar" "xvf" (assoc-ref inputs "htslib-src") "--strip-components=1"))) - (with-directory-excursion "lz4" - (zero? (system* "tar" "xvf" (assoc-ref inputs "lz4-src") - "--strip-components=1"))) + ; (with-directory-excursion "lz4" + ; (zero? (system* "tar" "xvf" (assoc-ref inputs "lz4-src") + ; "--strip-components=1"))) (zero? (system* "rm" "-r" "BioD")) (zero? (system* "ln" "--symbolic" "--no-target-directory" (assoc-ref inputs "biod-src") "BioD"))))) |