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| author | pjotrp | 2017-01-24 09:04:07 +0000 |
|---|---|---|
| committer | pjotrp | 2017-01-24 09:04:07 +0000 |
| commit | f0d73d5582d225b997eb8407cce2e5e8b161ade5 (patch) | |
| tree | fda8794ad4dcad260b179edca2342d9c0e73d04d /gn/packages/bioinformatics.scm | |
| parent | 5fa0e726f7e76ebe7dc098fb3fc786f7ce67d540 (diff) | |
| download | guix-bioinformatics-f0d73d5582d225b997eb8407cce2e5e8b161ade5.tar.gz | |
sambamba: make file builds with symbols by default and O2
Diffstat (limited to 'gn/packages/bioinformatics.scm')
| -rw-r--r-- | gn/packages/bioinformatics.scm | 17 |
1 files changed, 9 insertions, 8 deletions
diff --git a/gn/packages/bioinformatics.scm b/gn/packages/bioinformatics.scm index 5d6f04d..c920d30 100644 --- a/gn/packages/bioinformatics.scm +++ b/gn/packages/bioinformatics.scm @@ -935,6 +935,8 @@ association studies (GWAS).") (base32 "05nlhwjw17igcwiz4pq0r4f8flrqcy4065fhx4nhpc0g65p70mi5")))) (build-system gnu-build-system) + (outputs '("out" + "debug")) ;retain debug symbols (native-inputs `(("ldc" ,ldc) ("lz4" ,lz4) @@ -995,7 +997,7 @@ association studies (GWAS).") (replace 'build (lambda* (#:key inputs make-flags #:allow-other-keys) - (zero? (system* "make" "-f" "Makefile.guix" "sambamba-ldmd2-debug" "CC=gcc" "D_COMPILER=ldc2" + (zero? (system* "make" "-f" "Makefile.guix" "sambamba-ldmd2" (string-append "LDC_LIB_PATH=" (assoc-ref inputs "ldc") "/lib"))))) @@ -1005,16 +1007,15 @@ association studies (GWAS).") (let ((bin (string-append (assoc-ref outputs "out") "/bin"))) (install-file "build/sambamba" bin))))))) (home-page "https://github.com/lomereiter/sambamba") - (synopsis "A tool for working with SAM and BAM files written in D.") + (synopsis "Fast tool for working with SAM, BAM and CRAM files written in D.") (description - "Sambamba is a high performance modern robust and fast tool (and -library), written in the D programming language, for working with SAM -and BAM files. Current parallelised functionality is an important -subset of samtools functionality, including view, index, sort, -markdup, and depth.") + "Sambamba is a high performance modern robust and fast +tool (and library), written in the D programming language, for working +with SAM, BAM and CRAM files. Current parallelised functionality is +an important subset of samtools functionality, including view, index, +sort, markdup, and depth.") (license license:gpl2+)))) - (define-public vcflib (let ((commit "3ce827d8ebf89bb3bdc097ee0fe7f46f9f30d5fb")) (package |