diff options
| author | Sharlatan Hellseher <sharlatanus@gmail.com> | 2025-12-14 15:26:26 +0000 |
|---|---|---|
| committer | Rutherther <rutherther@ditigal.xyz> | 2026-01-25 21:19:03 +0100 |
| commit | 602cf6ca460b14944c2f64d79af75d2cbc6d1037 (patch) | |
| tree | 880c90800fe4adbfd9d6731575acc59563155b6e | |
| parent | 8648556deb270fd25e4eb25650ff5391087e71e9 (diff) | |
gnu: python-arboreto: Update to 0.1.6-0.79f916b.
* gnu/packages/bioinformatics.scm (python-arboreto): Update to
79f916b0ea25c00989331b8db243826049c3d66c commit.
[arguments] <tests?, test-backend> Enable.
<phases>: Add 'disable-failing-tests.
[propagated-inputs]: Remove python-lz4, python-pyarrow, and
python-tornado-6.
[native-inputs]: Remove python-wheel.
Change-Id: If380a31f7a27832c0e0fd1dda80d5dfd3e539345
Signed-off-by: Rutherther <rutherther@ditigal.xyz>
| -rw-r--r-- | gnu/packages/bioinformatics.scm | 40 |
1 files changed, 26 insertions, 14 deletions
diff --git a/gnu/packages/bioinformatics.scm b/gnu/packages/bioinformatics.scm index 7a2539b0126..8b73e040057 100644 --- a/gnu/packages/bioinformatics.scm +++ b/gnu/packages/bioinformatics.scm @@ -21848,34 +21848,46 @@ pycisTarget and SCENIC.") (define-public python-arboreto (package (name "python-arboreto") - (version "0.1.6") + ;; 0.1.6 was released in 2021 + (properties '((commit . "79f916b0ea25c00989331b8db243826049c3d66c") + (revision . "0"))) + (version (git-version "0.1.6" + (assoc-ref properties 'revision) + (assoc-ref properties 'commit))) (source (origin (method git-fetch) (uri (git-reference - (url "https://github.com/aertslab/arboreto") - (commit "2f475dca08f47a60acc2beb8dd897e77b7495ca4"))) + (url "https://github.com/aertslab/arboreto") + (commit (assoc-ref properties 'commit)))) (file-name (git-file-name name version)) (sha256 (base32 - "0l0im8ay7l2d24f7vaha454vsaha9s36bfqhbijg3b8ir8apsd7l")))) + "10h1xzvp5r4612icxd5mfhvmwyw57mlvw6z9nwgh37qpzjcnvddd")))) (build-system pyproject-build-system) - ;; Lots of tests fail because python-distributed fails to start the - ;; "Nanny" process. - (arguments '(#:tests? #false)) + (arguments + (list + ;; tests: 38 tests (skipped=2) + #:test-backend #~'unittest + #:phases + #~(modify-phases %standard-phases + (add-after 'unpack 'disable-failing-tests + (lambda _ + (substitute* "tests/test_algo.py" + ;; AssertionError: 'Timed out trying to connect to + ;; tcp://127.0.0.2:12345 after 10 s' not found in 'Timed out + ;; trying to connect to tcp://127.0.0.2:12345 after 30 s' + (("def test_address") + "def __off_test_address"))))))) (native-inputs - (list python-setuptools - python-wheel)) + (list python-setuptools)) (propagated-inputs - (list python-bokeh + (list python-bokeh ;XXX: for python-dask python-dask python-distributed - python-lz4 python-numpy python-pandas - python-pyarrow python-scikit-learn - python-scipy - python-tornado-6)) + python-scipy)) (home-page "https://github.com/aertslab/arboreto") (synopsis "Gene regulatory network inference using tree-based ensemble regressors") (description |