guix_mirror_bot pushed a commit to branch master
in repository guix.
commit cb2dc11bb635fd66f66d5c9fb07d089025c2784b
Author: Andreas Enge <[email protected]>
AuthorDate: Thu Oct 23 21:14:20 2025 +0200
gnu: Remove samtools-1.12.
* gnu/packages/bioinformatics.scm (samtools-1.12): Delete variable.
Change-Id: Ibd80f3fb79efab17193f82b4f713ff1f2cbd2470
---
gnu/packages/bioinformatics.scm | 41 -----------------------------------------
1 file changed, 41 deletions(-)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index f9c0e10a60..62a21406d5 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -11204,47 +11204,6 @@ viewer.")
(inputs
(list htslib-1.14 ncurses perl python zlib))))
-(define-public samtools-1.12
- (package/inherit samtools
- (version "1.12")
- (source
- (origin
- (method url-fetch)
- (uri
- (string-append "mirror://sourceforge/samtools/samtools/"
- version "/samtools-" version ".tar.bz2"))
- (sha256
- (base32
- "1jrdj2idpma5ja9cg0rr73b565vdbr9wyy6zig54bidicc2pg8vd"))
- (modules '((guix build utils)))
- (snippet '(begin
- ;; Delete bundled htslib.
- (delete-file-recursively "htslib-1.12")))))
- (arguments
- (substitute-keyword-arguments (package-arguments samtools)
- ((#:modules _ #f)
- '((ice-9 ftw)
- (ice-9 regex)
- (guix build gnu-build-system)
- (guix build utils)))
- ((#:phases phases)
- `(modify-phases ,phases
- (add-after 'install 'install-library
- (lambda* (#:key outputs #:allow-other-keys)
- (let ((lib (string-append (assoc-ref outputs "out") "/lib")))
- (install-file "libbam.a" lib))))
- (add-after 'install 'install-headers
- (lambda* (#:key outputs #:allow-other-keys)
- (let ((include (string-append (assoc-ref outputs "out")
- "/include/samtools/")))
- (for-each (lambda (file)
- (install-file file include))
- (scandir "." (lambda (name)
- (string-match "\\.h$" name)))))))))))
- (native-inputs (list pkg-config))
- (inputs
- (list htslib-1.12 ncurses perl python zlib))))
-
(define-public samtools-0.1
;; This is the most recent version of the 0.1 line of samtools. The input
;; and output formats differ greatly from that used and produced by samtools
