diff options
| -rw-r--r-- | .guix/modules/gnqc-py.scm | 69 |
1 files changed, 29 insertions, 40 deletions
diff --git a/.guix/modules/gnqc-py.scm b/.guix/modules/gnqc-py.scm index 4ff86b5..848b29d 100644 --- a/.guix/modules/gnqc-py.scm +++ b/.guix/modules/gnqc-py.scm @@ -1,16 +1,13 @@ (define-module (gnqc-py) - #:use-module (guix) #:use-module (guix gexp) + #:use-module (guix utils) #:use-module (guix packages) #:use-module (guix git-download) - #:use-module ((guix licenses) #:prefix license:) - #: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)) + #:use-module ((gnu packages check) #:select (python-pylint)) + #:use-module ((gnu packages python-check) #:select (python-mypy)) + + #:use-module ((gn packages genenetwork) #:select (gnqc-py) #:prefix gn:)) (define %source-dir (dirname (dirname (current-source-directory)))) @@ -18,40 +15,32 @@ (or (git-predicate %source-dir) (const #t))) -(define gnqc-py +(define-public gnqc-py + (package + (inherit gn:gnqc-py) + (source + (local-file "../.." + "gnqc-py-checkout" + #:recursive? #t + #:select? vcs-file?)))) + +(define-public gnqc-py-all-tests (package - (name "gnqc-py") - (version "0.0.1") - (source (local-file "../.." - "gnqc-py-checkout" - #:recursive? #t - #:select? vcs-file?)) - (build-system python-build-system) + (inherit gnqc-py) (arguments - (list - #:phases - #~(modify-phases %standard-phases - (replace 'check - (lambda* (#:key tests? #:allow-other-keys) - (when tests? - (invoke "pytest" "-k" "unit_test"))))))) + (substitute-keyword-arguments (package-arguments gnqc-py) + ((#:phases #~%standard-phases) + #~(modify-phases #$phases + (add-before 'build 'pylint + (lambda _ + (invoke "pylint" "setup.py" "wsgi.py" "tests" "quality_control" + "qc_app" "r_qtl" "scripts"))) + (add-after 'pylint 'mypy + (lambda _ + (invoke "mypy" "."))))))) (native-inputs - (list python-mypy - python-pylint - python-pytest - python-hypothesis)) - (propagated-inputs - (list gunicorn - python-redis - python-flask - python-pyyaml - python-jsonpickle - 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+))) + (modify-inputs (package-native-inputs gnqc-py) + (prepend python-mypy) + (prepend python-pylint))))) gnqc-py |