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authorFrederick Muriuki Muriithi2024-03-08 02:55:29 +0300
committerFrederick Muriuki Muriithi2024-03-08 02:55:29 +0300
commit3414d825a9799f30d92e5188378cb7ad69db0eb0 (patch)
tree83a9c321a2f1edd2cea9a10b2ae58a7a6a836e13 /gn
parent645cfb51a968e58b286e8af7a6fa3fefa6b512a8 (diff)
downloadguix-bioinformatics-3414d825a9799f30d92e5188378cb7ad69db0eb0.tar.gz
gn-uploader: Update package definition
Diffstat (limited to 'gn')
-rw-r--r--gn/packages/genenetwork.scm85
1 files changed, 44 insertions, 41 deletions
diff --git a/gn/packages/genenetwork.scm b/gn/packages/genenetwork.scm
index 5298490..dae4b54 100644
--- a/gn/packages/genenetwork.scm
+++ b/gn/packages/genenetwork.scm
@@ -345,47 +345,50 @@
(description "Genenetwork installation sumo.")
(license license:agpl3+))))
-(define-public gnqc-py
- (package
- (name "gnqc-py")
- (version "0.0.1")
- (source
- (origin
- (method git-fetch)
- (uri (git-reference
- (url "https://gitlab.com/fredmanglis/gnqc_py.git")
- (commit "c81a3d948b3bc0db20a530fa1aa428b35b5d6145")))
- (hash
- (content-hash
- (base32
- "1101pql7zpijn36i9phcakfx1r5dcvdf6ix0v4ndjzmzx3d0xyi2")))))
- (build-system python-build-system)
- (arguments
- (list
- #:phases
- #~(modify-phases %standard-phases
- (replace 'check
- (lambda* (#:key tests? #:allow-other-keys)
- (when tests?
- (invoke "pytest" "-k" "unit_test")))))))
- (native-inputs
- `(("python-mypy" ,python-mypy)
- ("python-pylint" ,python-pylint)
- ("python-pytest" ,python-pytest)
- ("python-hypothesis" ,python-hypothesis)))
- (propagated-inputs
- `(("gunicorn" ,gunicorn)
- ("python-redis" ,python-redis)
- ("python-flask" ,python-flask)
- ("python-pyyaml" ,python-pyyaml)
- ("python-jsonpickle" ,python-jsonpickle)
- ("python-mysqlclient" ,python-mysqlclient)))
- (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://gitlab.com/fredmanglis/gnqc_py")
- (license license:agpl3+)))
+(define-public gn-uploader
+ (let ((commit "6ced7085193affa636f229e72dc19175a3a06cfe")
+ (version "0.0.1"))
+ (package
+ (name "gn-uploader")
+ (version (string-append version (string-take commit 8)))
+ (source
+ (origin
+ (method git-fetch)
+ (uri (git-reference
+ (url "https://git.genenetwork.org/gn-uploader")
+ (commit commit)))
+ (hash
+ (content-hash
+ (base32
+ "09sy7kxdrf44m2yr4cqn0nx070mdnqb76888ghrwpqzgd2phfhjp")))))
+ (build-system python-build-system)
+ (arguments
+ (list
+ #:phases
+ #~(modify-phases %standard-phases
+ (replace 'check
+ (lambda* (#:key tests? #:allow-other-keys)
+ (when tests?
+ (invoke "pytest" "-m" "unit_test")))))))
+ (native-inputs
+ `(("python-mypy" ,python-mypy)
+ ("python-pylint" ,python-pylint)
+ ("python-pytest" ,python-pytest)
+ ("python-hypothesis" ,python-hypothesis)))
+ (propagated-inputs
+ `(("gunicorn" ,gunicorn)
+ ("python-redis" ,python-redis)
+ ("python-flask" ,python-flask)
+ ("python-pyyaml" ,python-pyyaml)
+ ("python-jsonpickle" ,python-jsonpickle)
+ ("python-mysqlclient" ,python-mysqlclient)))
+ (synopsis "GeneNetwork Quality Control Application")
+ (description
+ "gn-uploader is a service allowing upload of new data into GeneNetwork,
+ that does quality control for the data files that is being uploaded to ensure
+ it fulfils all conditions before it can be accepted.")
+ (home-page "https://git.genenetwork.org/gn-uploader")
+ (license license:agpl3+))))
(define-public gn-auth
(package