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gnu: python-pyjanitor: Update to 0.32.5.

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* gnu/packages/python-science.scm (python-pyjanitor): Update to 0.32.5.
[arguments] <test-flags>: Rework ignored/skipped tests.
[propagated-inputs]: Remove python-requests.
[native-inputs]: Add python-openpyxl and python-requests.
[synopsys]: pandas->Pandas.

Change-Id: I12f3f1f6ab84d63882325103e8c729d44656c97c
This commit is contained in:
Sharlatan Hellseher 2026-01-13 00:24:29 +00:00 • committed by Andreas Enge
parent 9e01216593
commit c907022778
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1 changed files with 28 additions and 25 deletions
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@ -4211,42 +4211,46 @@ production-critical data pipelines or reproducible research settings. With
(define-public python-pyjanitor
(package
(name "python-pyjanitor")
(version "0.31.0")
(version "0.32.5")
(source
(origin
;; The build requires the mkdocs directory for the description in
;; setup.py. This is not included in the PyPI tarball.
(method git-fetch)
(uri (git-reference
(url "https://github.com/pyjanitor-devs/pyjanitor")
(commit (string-append "v" version))))
(file-name (git-file-name name version))
(sha256
(base32 "06y6fvydrsjqdpbd20icd194693x127qhb19fgw248jfjyg5ga44"))))
(base32 "058w2mq42v55xkqv3cvxry53sj2qh1v64ad4gc5qb8a3is453a07"))))
(build-system pyproject-build-system)
;; Pyjanitor has an extensive test suite. For quick debugging, the tests
;; marked turtle can be skipped using "-m" "not turtle".
(arguments
(list
;; tests: 1042 passed, 2 skipped, 2 deselected, 45 xfailed, 6 xpassed,
;; 735 warnings
;; tests: 1030 passed, 2 skipped, 42 xfailed, 6 xpassed, 594 warnings
#:test-flags
;; The tests take quite long, so consider adding the "-n" line and
;; adding python-pytest-xdist to the native-inputs when testing.
;; However, the tests are not deterministic when ran with -n, so
;; disable again before committing.
#~(list ;; "-n" (number->string (parallel-job-count))
;; However, the tests are not deterministic, enen they are enabled in
;; project's CI (.github/workflows/tests.yml), when ran with "-n,
;; --numprocesses" , so disable again before committing.
#~(list ;; "--numprocesses" (number->string (min 8 (parallel-job-count)))
;; Test files are not included.
"--ignore=tests/io/test_read_csvs.py"
;; Polars has not been packaged yet.
"--ignore=tests/polars"
"--ignore=tests/polars/"
;; PySpark has not been packaged yet.
"--ignore=tests/spark/functions/test_clean_names_spark.py"
"--ignore=tests/spark/functions/test_update_where_spark.py"
"--ignore=tests/spark/"
;; Tries to connect to the internet.
"-k" (string-append "not test_is_connected"
;; Test files are not included.
" and not test_read_commandline_bad_cmd"))
" and not test_read_commandline_bad_cmd"
;; XXX: Fatal Python error: Segmentation fault
" and not test_maccs_keys_fingerprint"
" and not test_morgan_fingerprint_counts"
" and not test_morgan_fingerprint_bits"
;; AssertionError: DataFrame.iloc[:, 1]
;; (column name="cities") are different
" and not test_various_sorted"))
#:phases
#~(modify-phases %standard-phases
(add-before 'check 'set-env-ci
@ -4254,25 +4258,24 @@ production-critical data pipelines or reproducible research settings. With
;; Some tests are skipped if the JANITOR_CI_MACHINE
;; variable is not set.
(setenv "JANITOR_CI_MACHINE" "1"))))))
;; TODO: Remove python-requests and inject its target data to make the
;; package behaviour reproducible.
(propagated-inputs (list python-multipledispatch
python-natsort
python-pandas-flavor
python-requests
python-scipy
;; Optional imports.
python-biopython ;biology submodule
python-unyt)) ;engineering submodule
(native-inputs (list python-pytest
;; [optional]
python-biopython
python-unyt))
(native-inputs (list python-numba
python-openpyxl
python-pytest
;;python-pytest-xdist ;only for -n when testing
;; TODO: Remove python-requests and inject its target
;; data to make the package behaviour reproducible.
python-requests
python-setuptools
;; Optional imports. We do not propagate them due to
;; their size.
python-numba ;speedup of joins
rdkit)) ;chemistry submodule
rdkit))
(home-page "https://github.com/pyjanitor-devs/pyjanitor")
(synopsis "Tools for cleaning and transforming pandas DataFrames")
(synopsis "Tools for cleaning and transforming Pandas DataFrames")
(description
"@code{pyjanitor} provides a set of data cleaning routines for
@code{pandas} DataFrames. These routines extend the method chaining API