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authorFrederick Muriuki Muriithi2022-05-09 06:14:02 +0300
committerFrederick Muriuki Muriithi2022-05-09 06:14:02 +0300
commit7da33ecd14ecd78405a0aa951c3f2b53f24e07fa (patch)
tree50624e313f01ec22295800129d3a2f2a6898aba0 /gn/packages
parentb66e7de1c97bdc85d778cb637b10bda30e465b01 (diff)
downloadguix-bioinformatics-7da33ecd14ecd78405a0aa951c3f2b53f24e07fa.tar.gz
Add definition for genenetwork-qc
Add a package definition for the GeneNetwork Quality Control application.
Diffstat (limited to 'gn/packages')
-rw-r--r--gn/packages/quality-control.scm49
1 files changed, 48 insertions, 1 deletions
diff --git a/gn/packages/quality-control.scm b/gn/packages/quality-control.scm
index 8fa7a16..f518ea3 100644
--- a/gn/packages/quality-control.scm
+++ b/gn/packages/quality-control.scm
@@ -8,7 +8,13 @@
#:use-module (guix build-system asdf)
#:use-module (gnu packages lisp-check)
#:use-module (gnu packages lisp-xyz)
- #:use-module (gnu packages))
+ #:use-module (gnu packages)
+ #:use-module (gnu packages check)
+ #:use-module (gnu packages databases)
+ #:use-module (gnu packages python-xyz)
+ #:use-module (gnu packages python-web)
+ #:use-module (guix build-system python)
+ #:use-module (gnu packages python-check))
(define-public libcsv
(let ((commit "b1d5212831842ee5869d99bc208a21837e4037d5")
@@ -125,3 +131,44 @@ delimited text files:
#;(define-public ecl-qc-uploads
(sbcl-package->ecl-package sbcl-qc-uploads))
+(define-public genenetwork-qc
+ (let ((commit "7c3335f7c81a5f30dc1b6f55c5cc858c35f17981")
+ (revision "1"))
+ (package
+ (name "genenetwork-qc")
+ (version (git-version "0.0.1" revision commit))
+ (source
+ (origin
+ (method git-fetch)
+ (uri
+ (git-reference
+ (url "https://git.genenetwork.org/fredmanglis/gnqc_py.git")
+ (commit commit)))
+ (sha256
+ (base32 "146g9vilpnkcvgn9d6wl672jykaqyl979s1bfjmn0jqshb6sw9fx"))))
+ (build-system python-build-system)
+ (arguments
+ `(#:phases
+ (modify-phases %standard-phases
+ (replace 'check
+ (lambda* (#:key tests? #:allow-other-keys)
+ (when tests?
+ (invoke "pytest")))))))
+ (native-inputs
+ (list
+ python-mypy
+ python-pylint
+ python-pytest
+ python-hypothesis))
+ (propagated-inputs
+ (list
+ python-rq
+ python-magic
+ python-flask
+ python-jsonpickle))
+ (synopsis "GeneNetwork Quality Control Application")
+ (description
+ "GeneNetwork qc is a quality control application for the data files that
+ eventually are used to add to the data in the GeneNetwork project.")
+ (home-page "https://git.genenetwork.org/fredmanglis/gnqc_py")
+ (license license:agpl3+))))