diff options
Diffstat (limited to 'gnu/packages/bioinformatics.scm')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 20 |
1 files changed, 7 insertions, 13 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index f5122a1802..87da4aed15 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -300,7 +300,7 @@ BAM files.") (define-public bcftools (package (name "bcftools") - (version "1.3.1") + (version "1.4.1") (source (origin (method url-fetch) (uri (string-append @@ -308,11 +308,12 @@ BAM files.") version "/bcftools-" version ".tar.bz2")) (sha256 (base32 - "095ry68vmz9q5s1scjsa698dhgyvgw5aicz24c19iwfbai07mhqj")) + "024xv59bzv148b6w3das4jmldf7rywsf8y1fbqznap008qc8gl6p")) + (patches (search-patches "bcftools-fix-makefile.patch")) (modules '((guix build utils))) (snippet ;; Delete bundled htslib. - '(delete-file-recursively "htslib-1.3.1")))) + '(delete-file-recursively "htslib-1.4.1")))) (build-system gnu-build-system) (arguments `(#:test-target "test" @@ -321,19 +322,12 @@ BAM files.") "USE_GPL=1" (string-append "prefix=" (assoc-ref %outputs "out")) (string-append "HTSDIR=" (assoc-ref %build-inputs "htslib") "/include") - (string-append "HTSLIB=" (assoc-ref %build-inputs "htslib") "/lib/libhts.a") + (string-append "HTSLIB=" (assoc-ref %build-inputs "htslib") "/lib/libhts.so") (string-append "BGZIP=" (assoc-ref %build-inputs "htslib") "/bin/bgzip") - (string-append "TABIX=" (assoc-ref %build-inputs "htslib") "/bin/tabix")) + (string-append "TABIX=" (assoc-ref %build-inputs "htslib") "/bin/tabix") + (string-append "PACKAGE_VERSION=" ,version)) #:phases (modify-phases %standard-phases - (add-after 'unpack 'patch-Makefile - (lambda _ - (substitute* "Makefile" - ;; Do not attempt to build htslib. - (("^include \\$\\(HTSDIR\\)/htslib\\.mk") "") - ;; Link against GSL cblas. - (("-lcblas") "-lgslcblas")) - #t)) (delete 'configure) (add-before 'check 'patch-tests (lambda _ |