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-rw-r--r--gnu/packages/bioinformatics.scm42
1 files changed, 0 insertions, 42 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index 2073541ca5..2c5ad343f5 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -4025,48 +4025,6 @@ standard linear mixed model resolver with application in @acronym{GWAS,
genome-wide association studies}.")
(license license:gpl3)))
-(define-public grit
- (package
- (name "grit")
- (version "2.0.5")
- (source (origin
- (method git-fetch)
- (uri (git-reference
- (url "https://github.com/nboley/grit")
- (commit version)))
- (file-name (git-file-name name version))
- (sha256
- (base32
- "1l5v8vfvfbrpmgnrvbrbv40d0arhxcnmxgv2f1mlcqfa3q6bkqm9"))))
- (build-system python-build-system)
- (arguments
- `(#:python ,python-2
- #:phases
- (modify-phases %standard-phases
- (add-after 'unpack 'generate-from-cython-sources
- (lambda* (#:key inputs outputs #:allow-other-keys)
- ;; Delete these C files to force fresh generation from pyx sources.
- (delete-file "grit/sparsify_support_fns.c")
- (delete-file "grit/call_peaks_support_fns.c")
- (substitute* "setup.py"
- (("Cython.Setup") "Cython.Build"))
- #t)))))
- (inputs
- (list python2-scipy python2-numpy python2-pysam python2-networkx))
- (native-inputs
- (list python2-cython))
- ;; The canonical <http://grit-bio.org> home page times out as of 2020-01-21.
- (home-page "https://github.com/nboley/grit")
- (synopsis "Tool for integrative analysis of RNA-seq type assays")
- (description
- "GRIT is designed to use RNA-seq, TES, and TSS data to build and quantify
-full length transcript models. When none of these data sources are available,
-GRIT can be run by providing a candidate set of TES or TSS sites. In
-addition, GRIT can merge in reference junctions and gene boundaries. GRIT can
-also be run in quantification mode, where it uses a provided GTF file and just
-estimates transcript expression.")
- (license license:gpl3+)))
-
(define-public hisat
(package
(name "hisat")