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Revert "gnu: Add bitmapperbs."

This reverts commit f55cc9cb0f.
This commit was prematurely pushed.
master
Ricardo Wurmus 2023-02-07 15:36:21 +01:00
parent 9a0f840b38
commit a083a9b512
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1 changed files with 0 additions and 51 deletions

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@ -512,57 +512,6 @@ BED, GFF/GTF, VCF.")
(inputs
(list samtools zlib))))
(define-public bitmapperbs
(package
(name "bitmapperbs")
(version "1.0.2.3")
(source (origin
(method git-fetch)
(uri (git-reference
(url "https://github.com/chhylp123/BitMapperBS/")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
(base32
"02ksssfnvmpskld0a2016smfz5nrzm3d90v8974f3cpzywckvp8v"))
(modules '((guix build utils)))
(snippet '(begin
(delete-file-recursively "libdivsufsort-2.0.1")
(delete-file-recursively "pSAscan-0.1.0")))))
;;this package bundles a modified copy of htslib, so we cannot unbundle it
(build-system gnu-build-system)
(arguments
(list
#:tests? #false
#:make-flags '(list "bitmapperBS")
#:phases
#~(modify-phases %standard-phases
(replace 'install
(lambda _
(install-file "bitmapperBS"
(string-append #$output "/bin/"))))
#;(add-after 'unpack 'fix-build-system
(lambda _
(substitute* "Makefile"
(("-Wl,-rpath=htslib_aim/lib") "")
#;(("^HTSLIB_INFO.*") ""))))
(add-after 'unpack 'patch-references-to-psascan
(lambda* (#:key inputs #:allow-other-keys)
(substitute* "Makefile"
(("\"(./)?psascan" pre all)
(string-append "\"" pre (search-input-file inputs "/bin/psascan"))))))
(delete 'configure))))
(inputs
(list libdivsufsort
psascan
zlib))
(home-page "https://github.com/chhylp123/BitMapperBS/")
(synopsis "read aligner for whole-genome bisulfite sequencing")
(description
"BitMapperBS is memory-efficient aligner that
is designed for WGBS reads from directional protocol.")
(license license:gpl3+)))
(define-public cellsnp-lite
;; Last release is from November 2021 and does not contain fixes.
(let ((commit "0885d746b0b1ea65c8ef92f8943ca7669ca9734a")