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authorChristopher Baines <mail@cbaines.net>2021-05-29 01:21:14 +0100
committerChristopher Baines <mail@cbaines.net>2021-05-29 01:21:14 +0100
commit6417b97c7e10de8592ac9fda15774ee711d3dc25 (patch)
treef09537a724cc332818b5408ca7cb78dd2d179545
parent12489ee005c3c27b99388d5866bdbb3ca28d68e1 (diff)
downloadguix-6417b97c7e10de8592ac9fda15774ee711d3dc25.tar.gz
guix-6417b97c7e10de8592ac9fda15774ee711d3dc25.zip
Revert "gnu: Add mosaicatcher."
mosaicatcher-unbundle-htslib.patch is missing. This reverts commit b1ae0f30d856503fa311d380584a6d7c80559332.
-rw-r--r--gnu/packages/bioinformatics.scm40
1 files changed, 0 insertions, 40 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 2a7443314a..f38c0c07ef 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -6170,46 +6170,6 @@ Roche 454, Ion Torrent and Pacific BioSciences SMRT.")
;; 2. MD5 implementation - RSA Data Security, RFC 1321
(license (list license:gpl2+ license:public-domain)))))
-(define-public mosaicatcher
- (package
- (name "mosaicatcher")
- (version "0.3.1")
- (source (origin
- ;; There are no release tarballs nor tags.
- (method git-fetch)
- (uri (git-reference
- (url "https://github.com/friendsofstrandseq/mosaicatcher")
- (commit (string-append version "-dev"))))
- (file-name (git-file-name name version))
- (sha256
- (base32
- "1n2s5wvvj2y0vfgjkg1q11xahpbagxz7h2vf5q7qyy25s12kbzbd"))
- (patches (search-patches "mosaicatcher-unbundle-htslib.patch"))))
- (build-system cmake-build-system)
- (arguments
- `(#:tests? #false ; there are no tests
- #:phases
- (modify-phases %standard-phases
- (add-after 'unpack 'chdir
- (lambda _ (chdir "src")))
- (replace 'install
- (lambda* (#:key inputs outputs #:allow-other-keys)
- (let* ((target (assoc-ref outputs "out"))
- (bin (string-append target "/bin"))
- (share (string-append target "/share/mosaicatcher")))
- (install-file "mosaic" bin)
- (mkdir-p share)
- (copy-recursively "../R" share)))))))
- (inputs
- `(("boost" ,boost)
- ("htslib" ,htslib)))
- (home-page "https://github.com/friendsofstrandseq/mosaicatcher")
- (synopsis "Count and classify Strand-seq reads")
- (description
- "Mosaicatcher counts Strand-seq reads and classifies strand states of
-each chromosome in each cell using a Hidden Markov Model.")
- (license license:expat)))
-
(define-public ngs-sdk
(package
(name "ngs-sdk")