nafkhamdc wrote 10 months ago
(address . guix-patches@gnu.org)(name . nafkhamdc)(address . navid.afkhami@mdc-berlin.de)
076e35e70f743849d45c10197865b1d74d3f9978.1714729992.git.navid.afkhami@mdc-berlin.de
* gnu/packages/bioinformatics.scm (python-pyrodigal): New variable.
Change-Id: Iaa0bdb4b918d93f990d5b904f1df3a3f910726b0
---
gnu/packages/bioinformatics.scm | 31 +++++++++++++++++++++++++++++++
1 file changed, 31 insertions(+)
Toggle diff (48 lines)
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm
index b90a1c7824..bc10123a8f 100644
--- a/gnu/packages/bioinformatics.scm
+++ b/gnu/packages/bioinformatics.scm
@@ -17710,6 +17710,37 @@ (define-public python-pypairix
bgzipped text file that contains a pair of genomic coordinates per line.")
(license license:expat)))
+(define-public python-pyrodigal
+ (package
+ (name "python-pyrodigal")
+ (version "3.3.0")
+ (source
+ (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://github.com/althonos/pyrodigal")
+ (commit (string-append "v" version))
+ (recursive? #t)))
+ (file-name (git-file-name name version))
+ (sha256
+ (base32 "10vxbm9i33wari0ifsr78xnfn7d0yqwzqpc5pchirjflf1mmnr6w"))))
+ (build-system pyproject-build-system)
+ (arguments
+ `(#:phases (modify-phases %standard-phases
+ (replace 'check
+ (lambda* (#:key tests? #:allow-other-keys)
+ (when tests?
+ (with-directory-excursion "/tmp"
+ (invoke "python3" "-m" "unittest" "discover" "-vv"))))))))
+ (propagated-inputs (list python-archspec python-importlib-resources))
+ (native-inputs (list python-cython-3 python-mock python-unittest2))
+ (home-page "https://github.com/althonos/pyrodigal")
+ (synopsis "Cython bindings and Python interface for Prodigal")
+ (description
+ "This package offers Cython bindings and a Python interface for Prodigal.
+ Prodigal is an ORF finder designed for both genomes and metagenomes.")
+ (license license:gpl3)))
+
(define-public python-pyfaidx
(package
(name "python-pyfaidx")
base-commit: aa9ac252206615713ab988d7068da9e14a9bccc0
prerequisite-patch-id: 68498b47732fb0359e4db6d2f1c86f44d8c700ab
prerequisite-patch-id: 8cad86329867720ca9938e551ece489b056b37ad
--
2.34.1