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-rw-r--r--gnu/packages/bioinformatics.scm27
1 files changed, 9 insertions, 18 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 996e3731f3..8a79f66823 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -288,34 +288,25 @@ BAM files.")
(define-public bcftools
(package
(name "bcftools")
- (version "1.8")
+ (version "1.9")
(source (origin
(method url-fetch)
- (uri (string-append
- "https://github.com/samtools/bcftools/releases/download/"
- version "/bcftools-" version ".tar.bz2"))
+ (uri (string-append "https://github.com/samtools/bcftools/"
+ "releases/download/"
+ version "/bcftools-" version ".tar.bz2"))
(sha256
(base32
- "1vgw2mwngq20c530zim52zvgmw1lci8rzl33pvh44xqk3xlzvjsa"))
+ "1j3h638i8kgihzyrlnpj82xg1b23sijibys9hvwari3fy7kd0dkg"))
(modules '((guix build utils)))
(snippet '(begin
;; Delete bundled htslib.
- (delete-file-recursively "htslib-1.8")
+ (delete-file-recursively "htslib-1.9")
#t))))
(build-system gnu-build-system)
(arguments
- `(#:test-target "test"
- #:configure-flags (list "--with-htslib=system")
- #:make-flags
- (list
- "USE_GPL=1"
- "LIBS=-lgsl -lgslcblas"
- (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.so")
- (string-append "BGZIP=" (assoc-ref %build-inputs "htslib") "/bin/bgzip")
- (string-append "TABIX=" (assoc-ref %build-inputs "htslib") "/bin/tabix")
- (string-append "PACKAGE_VERSION=" ,version))
+ `(#:configure-flags
+ (list "--enable-libgsl")
+ #:test-target "test"
#:phases
(modify-phases %standard-phases
(add-before 'check 'patch-tests