diff options
| author | Navid Afkhami <navid.afkhami@mdc-berlin.de> | 2023-05-04 14:56:49 +0000 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2023-05-04 19:22:04 +0200 |
| commit | 5daf470e4fa4d16486d32c767e8d5e257cefebf6 (patch) | |
| tree | 41a75ada6f2d11fbc71f35a498cbccdea4740e44 /gnu | |
| parent | 040cf2df74530496fe0e7526aadfb402d9b67f43 (diff) | |
gnu: Add python-goatools.
* gnu/packages/bioinformatics.scm (python-goatools): New variable.
Co-authored-by: Ricardo Wurmus <rekado@elephly.net>
Diffstat (limited to 'gnu')
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 42 |
1 files changed, 42 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 7db8a91e80..7ee97e3da5 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -12337,6 +12337,48 @@ selection of file types and formats for handling genomic region data---all using the same syntax.") (license license:expat))) +(define-public python-goatools + (package + (name "python-goatools") + (version "1.3.1") + ;; Pypi tarball doesn't include test files. + (source (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/tanghaibao/goatools") + (commit (string-append "v" version)))) + (file-name (git-file-name name version)) + (sha256 + (base32 + "0a295zk9jc8kny5vnka63q3gbksins42kcmgvskf8xy7hkca7cmq")))) + (build-system pyproject-build-system) + (arguments + (list + ;; Almost all tests require access to the internet. + #:tests? #false + #:test-flags + ;; These have syntax errors. + '(list "--ignore=tests/test_i195_sgd_gaf.py" + "--ignore=tests/test_i206.py" + "--ignore=tests/test_setup_dirs.py"))) + (propagated-inputs (list python-docopt + python-numpy + python-openpyxl + python-pandas + python-pydot + python-requests + python-scipy + python-statsmodels + python-xlsxwriter)) + (native-inputs (list python-pytest)) + (home-page "https://github.com/tanghaibao/goatools") + (synopsis "Python scripts to find enrichment of GO terms") + (description "Python scripts to find enrichment of GO terms. In addition, +this package is used for processing the obo-formatted file from Gene Ontology +website. The data structure is a directed acyclic graph that allows easy +traversal from leaf to root.") + (license license:bsd-2))) + (define-public python-loompy (package (name "python-loompy") |