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new 272d526d58 gnu: Remove bowtie1.
272d526d58 is described below
commit 272d526d58e6eeb215dd0232e006846de78ed6e1
Author: Andreas Enge <[email protected]>
AuthorDate: Wed Aug 5 11:21:46 2026 +0200
gnu: Remove bowtie1.
* gnu/packages/bioinformatics.scm (bowtie1): Delete variable.
---
gnu/packages/bioinformatics.scm | 45 -----------------------------------------
1 file changed, 45 deletions(-)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 11d6fac83b..b5fd6074fd 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -5676,51 +5676,6 @@ gapped, local, and paired-end alignment modes.")
(supported-systems '("x86_64-linux"))
(license license:gpl3+)))
-(define-public bowtie1
- (package
- (name "bowtie1")
- (version "1.3.1")
- (source (origin
- (method url-fetch)
- (uri (string-append "mirror://sourceforge/bowtie-bio/bowtie/"
- version "/bowtie-" version "-src.zip"))
- (sha256
- (base32
- "0q87nhgj9wrnbazcpvqp4594hmyh1isi3s9b2wlghvl4afm1fdg2"))
- (modules '((guix build utils)))
- (snippet
- '(substitute* "Makefile"
- ;; replace BUILD_HOST and BUILD_TIME for deterministic build
- (("-DBUILD_HOST=.*") "-DBUILD_HOST=\"\\\"guix\\\"\"")
- (("-DBUILD_TIME=.*") "-DBUILD_TIME=\"\\\"0\\\"\"")))))
- (build-system gnu-build-system)
- (arguments
- `(#:tests? #f ; Tests need various perl modules
- #:test-target "simple-test"
- #:make-flags
- ,#~(append #$(if (not (target-x86?))
- #~'("POPCNT_CAPABILITY=0")
- #~'())
- (list (string-append "CC=" #$(cc-for-target))
- (string-append "CXX=" #$(cxx-for-target))
- "all"
- (string-append "prefix=" #$output)))
- #:phases
- (modify-phases %standard-phases
- (delete 'configure))))
- (inputs
- (list python-wrapper tbb zlib))
- (supported-systems %64bit-supported-systems)
- (home-page "https://bowtie-bio.sourceforge.net/index.shtml";)
- (synopsis "Fast aligner for short nucleotide sequence reads")
- (description
- "Bowtie is a fast, memory-efficient short read aligner. It aligns short
-DNA sequences (reads) to the human genome at a rate of over 25 million 35-bp
-reads per hour. Bowtie indexes the genome with a Burrows-Wheeler index to
-keep its memory footprint small: typically about 2.2 GB for the human
-genome (2.9 GB for paired-end).")
- (license license:artistic2.0)))
-
(define-public bwa
(package
(name "bwa")
