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| author | Ricardo Wurmus <rekado@elephly.net> | 2023-05-03 11:58:51 +0200 |
|---|---|---|
| committer | Ricardo Wurmus <rekado@elephly.net> | 2023-05-03 11:59:54 +0200 |
| commit | 83a6ca3c60155479525bbf01e7b9509a994c7d03 (patch) | |
| tree | 63958b0d95116508723cb09b91863712c585fb65 | |
| parent | bfe513eeb39a3325d1d8a6e23121f7ab4165a874 (diff) | |
| download | guix-83a6ca3c60155479525bbf01e7b9509a994c7d03.tar.gz | |
gnu: Add fanc.
* gnu/packages/bioinformatics.scm (fanc): New variable.
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 58 |
1 files changed, 58 insertions, 0 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 83ee4ac1df..8d739d4b52 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -4655,6 +4655,64 @@ variety of diversity measures including those that make use of phylogenetic similarity of community members.") (license license:gpl3+))) +(define-public fanc + (let ((commit "354401e52ba2320e6b1ba0d3b5aab3541d31c9f3") + (revision "1")) + (package + (name "fanc") + (version (git-version "0" revision commit)) + (source (origin + (method git-fetch) + (uri (git-reference + (url "https://github.com/vaquerizaslab/fanc.git") + (commit commit))) + (file-name (git-file-name name version)) + (sha256 + (base32 + "0vp2cak5snla4j2q23d3ixx016bwzvxfiv4z6yp7anl0xaksd5bl")))) + (build-system pyproject-build-system) + (arguments + (list + #:test-flags + '(list "-m" "not longrunning" + ;; XXX: some of the tests here just take forever + "--ignore=fanc/test/test_matrix.py"))) + (propagated-inputs + (list python-biopython + python-cooler + python-deprecated + python-future + python-genomic-regions + python-gridmap + python-h5py + python-imageio + python-intervaltree + python-matplotlib + python-msgpack + python-msgpack-numpy + python-numpy + python-pandas + python-pillow + python-progressbar2 + python-pybedtools + python-pybigwig + python-pysam + python-pywavelets + python-pyyaml + python-scikit-image + python-scikit-learn + python-scipy + python-seaborn + python-tables + python-tifffile)) + (native-inputs + (list python-cython python-pytest)) + (home-page "https://github.com/vaquerizaslab/fanc") + (synopsis "Framework for the analysis of C-like data") + (description "FAN-C provides a pipeline for analysing Hi-C data starting +at mapped paired-end sequencing reads.") + (license license:gpl3+)))) + (define-public fasttree (package (name "fasttree") |