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gnu: bcftools: Update to 1.9. 

* gnu/packages/bioinformatics.scm (bcftools): Update to 1.9.
[arguments]: Remove obsolete make flags.
This commit is contained in:
Ricardo Wurmus 2018-10-04 21:18:34 +02:00
parent 4ae4a15232
commit f79b59e311
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GPG Key ID: 197A5888235FACAC
1 changed files with 9 additions and 18 deletions
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gnu/packages/bioinformatics.scm
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@ -288,34 +288,25 @@ BAM files.")
(define-public bcftools (define-public bcftools
(package (package
(name "bcftools") (name "bcftools")
(version "1.8") (version "1.9")
(source (origin (source (origin
(method url-fetch) (method url-fetch)
(uri (string-append (uri (string-append "https://github.com/samtools/bcftools/"
"https://github.com/samtools/bcftools/releases/download/" "releases/download/"
version "/bcftools-" version ".tar.bz2")) version "/bcftools-" version ".tar.bz2"))
(sha256 (sha256
(base32 (base32
"1vgw2mwngq20c530zim52zvgmw1lci8rzl33pvh44xqk3xlzvjsa")) "1j3h638i8kgihzyrlnpj82xg1b23sijibys9hvwari3fy7kd0dkg"))
(modules '((guix build utils))) (modules '((guix build utils)))
(snippet '(begin (snippet '(begin
;; Delete bundled htslib. ;; Delete bundled htslib.
(delete-file-recursively "htslib-1.8") (delete-file-recursively "htslib-1.9")
#t)))) #t))))
(build-system gnu-build-system) (build-system gnu-build-system)
(arguments (arguments
`(#:test-target "test" `(#:configure-flags
#:configure-flags (list "--with-htslib=system") (list "--enable-libgsl")
#:make-flags #:test-target "test"
(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))
#:phases #:phases
(modify-phases %standard-phases (modify-phases %standard-phases
(add-before 'check 'patch-tests (add-before 'check 'patch-tests