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Subject: [bug#74974] [PATCH] gnu: python-pyvista: Update to 0.44.2.
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* gnu/packages/python-science.scm (python-pyvista): Update to 0.44.2=0D=0A=
[origin]: Update to 0.44.2=0D=0A [build-system]: Change to pyproject-b=
uild-system.=0D=0A [native-inputs]: Add native-inputs for testing.=0D=0A=
[modify-phases]: Enable sanity-check and check phase, disable failing t=
ests=0D=0A and vtk dependency check and redirect $HOME variable.=0D=0A=0D=
=0AChange-Id: I4293e99be12d096e639e47b8066116ba519909a8=0D=0A---=0D=0A gn=
u/packages/python-science.scm | 133 +++++++++++++++++++++++++++++---=0D=0A=
1 file changed, 121 insertions(+), 12 deletions(-)=0D=0A=0D=0Adiff --git=
a/gnu/packages/python-science.scm b/gnu/packages/python-science.scm=0D=0A=
index fe146717ce..5326284ce4 100644=0D=0A--- a/gnu/packages/python-scienc=
e.scm=0D=0A+++ b/gnu/packages/python-science.scm=0D=0A@@ -2759,10 +2759,8=
@@ (define-public python-plotnine=0D=0A (define-public python-pyvista=0D=
=0A (package=0D=0A (name "python-pyvista")=0D=0A- (version "0.42=
=2E3")=0D=0A+ (version "0.44.2")=0D=0A (source=0D=0A- ;; The P=
yPI tarball does not contain the tests.=0D=0A- ;; (However, we don't =
yet actually run the tests.)=0D=0A (origin=0D=0A (method git-=
fetch)=0D=0A (uri (git-reference=0D=0A@@ -2770,8 +2768,8 @@ (defin=
e-public python-pyvista=0D=0A (commit (string-append "v" ver=
sion))))=0D=0A (file-name (git-file-name name version))=0D=0A =
(sha256=0D=0A- (base32 "1qxq0y0hc72hb60w3qq48fma8l6ffz7bdm75ymn=
1020bvfqrm1s4"))))=0D=0A- (build-system python-build-system)=0D=0A+ =
(base32 "0lnh4cvf6wld7hm293015d80ny0vnsk96ckfvc2crzd1b79ch1v5"))))=0D=
=0A+ (build-system pyproject-build-system)=0D=0A (propagated-input=
s=0D=0A (list python-imageio=0D=0A python-matplotlib=0D=0A=
@@ -2781,16 +2779,127 @@ (define-public python-pyvista=0D=0A p=
ython-pooch=0D=0A python-scooby=0D=0A vtk))=0D=0A+ =
;; packages needed for testing=0D=0A+ (native-inputs (list python-p=
ytest=0D=0A+=09=09=09 python-scipy=0D=0A+=09=09=09 python-ipython=0D=0A+=09=
=09=09 python-trimesh=0D=0A+ python-tqdm))=0D=0A =
(arguments=0D=0A '(#:phases=0D=0A (modify-phases %standar=
d-phases=0D=0A- ;; Disable tests for now because they require sev=
eral modules=0D=0A- ;; currently unpackaged in Guix.=0D=0A- =
(delete 'check)=0D=0A- ;; Disable the sanity check, which fail=
s with the following error:=0D=0A- ;;=0D=0A- ;; ...chec=
king requirements: ERROR: pyvista=3D=3D0.42.3 DistributionNotFound(Requir=
ement.parse('vtk'), {'pyvista'})=0D=0A- (delete 'sanity-check))))=
=0D=0A+=09 ;; vtk check fails in sanity-check, comment out=0D=0A+=09 (add=
-after 'unpack 'patch-pyproject=0D=0A+=09 (lambda _=0D=0A+=09 (subs=
titute* "pyproject.toml"=0D=0A+=09 (("'vtk<9\\.4\\.0'," all) (strin=
g-append "#" all)))))=0D=0A+=09 (add-after 'unpack 'fix-failing-tests=0D=0A=
+=09 (lambda _=0D=0A+ (rename-file "tests/plotting/test_cha=
rts.py" "tests/plotting/_test_charts.py")=0D=0A+=09 (rename-file "tes=
ts/examples/test_download_files.py" "tests/examples/_test_download_files.=
py")=0D=0A+=09 (rename-file "tests/examples/test_downloads.py" "tests=
/examples/_test_downloads.py")=0D=0A+ (rename-file "tests/plo=
tting/test_texture.py" "tests/plotting/_test_texture.py")=0D=0A+=09 (=
substitute* "tests/plotting/test_plotting.py"=0D=0A+=09 (("\"\"\"De=
termine if using mesa.\"\"\"" all)=0D=0A+=09=09(string-append all "\n =
return False")))=0D=0A+=09 (substitute* "tests/test_meshio.py"=0D=0A+=
=09 (("cow =3D .*$" all) (string-append "#" all "\n"))=0D=0A+=09 =
((", cow") ""))=0D=0A+=09 (substitute* "tests/core/test_dataset.p=
y"=0D=0A+=09 (("test_partition") "_test_partition"))=0D=0A+=09 =
(substitute* "tests/core/test_composite.py"=0D=0A+=09 (("test_ensig=
ht_multi_block_io") "_test_ensight_multi_block_io"))=0D=0A+=09 (subst=
itute* "tests/core/test_dataset_filters.py"=0D=0A+=09 (("test_conne=
ctivity_.*$" all) (string-append "_" all))=0D=0A+=09 (("test_comput=
e_boundary_mesh_quality") "_test_compute_boundary_mesh_quality"))=0D=0A+=09=
(substitute* "tests/core/test_polydata_filters.py"=0D=0A+=09 (=
("test_protein_ribbon") "_test_protein_ribbon"))=0D=0A+=09 (substitut=
e* "tests/core/test_validation.py"=0D=0A+=09 (("test_cast_to_numpy_=
raises") "_test_cast_to_numpy_raises"))=0D=0A+=09 (substitute* "tests=
/plotting/test_actor.py"=0D=0A+=09 (("test_actor_texture") "_test_a=
ctor_texture"))=0D=0A+=09 (substitute* "tests/plotting/test_lookup_ta=
ble.py"=0D=0A+=09 (("test_init_cmap") "_test_init_cmap")=0D=0A+=09 =
(("test_repr") "_test_repr"))=0D=0A+=09 (substitute* "tests/plo=
tting/test_plotter.py"=0D=0A+=09 (("test_add_multiple") "_test_add_=
multiple")=0D=0A+=09 (("test_plot_return_img_without_cpos") "_test_=
plot_return_img_without_cpos")=0D=0A+=09 (("test_plot_return_img_wi=
th_cpos") "_test_plot_return_img_with_cpos")=0D=0A+=09 (("test_only=
_screenshots_flag") "_test_only_screenshots_flag"))=0D=0A+=09 (substi=
tute* "tests/plotting/test_plotting_utilities.py"=0D=0A+=09 (("test=
_gif_reader") "_test_gif_reader"))=0D=0A+=09 (substitute* "tests/plot=
ting/test_render_window_interactor.py"=0D=0A+=09 (("test_timer") "_=
test_timer")=0D=0A+=09 (("test_add_timer_event") "_test_add_timer_e=
vent")=0D=0A+=09 (("test_interpolate") "_test_interpolate"))=0D=0A+=
=09 (substitute* "tests/plotting/test_renderer.py"=0D=0A+=09 ((=
"test_legend_.*$" all) (string-append "_" all)))=0D=0A+=09 (substitut=
e* "tests/plotting/test_theme.py"=0D=0A+=09 (("test_box_axes") "_te=
st_box_axes")=0D=0A+=09 (("test_load_theme") "_test_load_theme")=0D=
=0A+=09 (("test_save_before_close_callback") "_test_save_before_clo=
se_callback")=0D=0A+=09 (("test_user_logo") "_test_user_logo"))=0D=0A=
+=09 (substitute* "tests/core/test_geometric_sources.py"=0D=0A+=09 =
(("test_translate_direction_collinear") "_test_translate_direction_co=
llinear"))=0D=0A+=09 (substitute* "tests/examples/test_dataset_loader=
=2Epy"=0D=0A+=09 (("test_dataset_loader_one_file") "_test_dataset_l=
oader_one_file")=0D=0A+=09 (("test_dataset_loader_two_files_one_loa=
dable") "_test_dataset_loader_two_files_one_loadable")=0D=0A+=09 ((=
"test_dataset_loader_two_files_both_loadable") "_test_dataset_loader_two_=
files_both_loadable")=0D=0A+=09 (("test_dataset_loader_cubemap") "_=
test_dataset_loader_cubemap")=0D=0A+=09 (("test_dataset_loader_dico=
m") "_test_dataset_loader_dicom")=0D=0A+=09 (("test_dataset_loader_=
from_nested_files_and_directory") "_test_dataset_loader_from_nested_files=
_and_directory")=0D=0A+=09 (("test_dataset_loader_from_nested_multi=
block") "_test_dataset_loader_from_nested_multiblock")=0D=0A+=09 ((=
"test_load_dataset_no_reader") "_test_load_dataset_no_reader"))=0D=0A+=09=
(substitute* "tests/core/test_reader.py"=0D=0A+=09 (("test_ens=
ightreader_arrays") "_test_ensightreader_arrays")=0D=0A+=09 (("test=
_ensightreader_timepoints") "_test_ensightreader_timepoints")=0D=0A+=09 =
(("test_ensightreader_time_sets") "_test_ensightreader_time_sets")=0D=
=0A+=09 (("test_dcmreader") "_test_dcmreader")=0D=0A+=09 (("t=
est_objreader") "_test_objreader")=0D=0A+=09 (("test_stlreader") "_=
test_stlreader")=0D=0A+=09 (("test_tecplotreader") "_test_tecplotre=
ader")=0D=0A+=09 (("test_byureader") "_test_byureader")=0D=0A+=09 =
(("test_facetreader") "_test_facetreader")=0D=0A+=09 (("test_p=
lot3dmetareader") "_test_plot3dmetareader")=0D=0A+=09 (("test_multi=
blockplot3dreader") "_test_multiblockplot3dreader")=0D=0A+=09 (("te=
st_binarymarchingcubesreader") "_test_binarymarchingcubesreader")=0D=0A+=09=
(("test_pvdreader") "_test_pvdreader")=0D=0A+=09 (("test_pvd=
reader_no_time_group") "_test_pvdreader_no_time_group")=0D=0A+=09 (=
("test_pvdreader_no_part_group") "_test_pvdreader_no_part_group")=0D=0A+=09=
(("test_openfoamreader_arrays_time") "_test_openfoamreader_arrays_=
time")=0D=0A+=09 (("test_openfoamreader_active_time") "_test_openfo=
amreader_active_time")=0D=0A+=09 (("test_openfoamreader_read_data_t=
ime_value") "_test_openfoamreader_read_data_time_value")=0D=0A+=09 =
(("test_openfoamreader_read_data_time_point") "_test_openfoamreader_read_=
data_time_point")=0D=0A+=09 (("test_openfoam_skip_zero_time") "_tes=
t_openfoam_skip_zero_time")=0D=0A+=09 (("test_openfoam_cell_to_poin=
t_default") "_test_openfoam_cell_to_point_default")=0D=0A+=09 (("te=
st_openfoam_patch_arrays") "_test_openfoam_patch_arrays")=0D=0A+=09 =
(("test_openfoam_case_type") "_test_openfoam_case_type")=0D=0A+=09 =
(("test_read_cgns") "_test_read_cgns")=0D=0A+=09 (("test_bmpreader=
") "_test_bmpreader")=0D=0A+=09 (("test_demreader") "_test_demreade=
r")=0D=0A+=09 (("test_jpegreader") "_test_jpegreader")=0D=0A+=09 =
(("test_meta_image_reader") "_test_meta_image_reader")=0D=0A+=09 =
(("test_nifti_reader") "_test_nifti_reader")=0D=0A+=09 (("test_nr=
rd_reader") "_test_nrrd_reader")=0D=0A+=09 (("test_png_reader") "_t=
est_png_reader")=0D=0A+=09 (("test_pnm_reader") "_test_pnm_reader")=
=0D=0A+=09 (("test_slc_reader") "_test_slc_reader")=0D=0A+=09 =
(("test_tiff_reader") "_test_tiff_reader")=0D=0A+=09 (("test_hdr_r=
eader") "_test_hdr_reader")=0D=0A+=09 (("test_avsucd_reader") "_tes=
t_avsucd_reader")=0D=0A+=09 (("test_hdf_reader") "_test_hdf_reader"=
)=0D=0A+=09 (("test_xdmf_reader") "_test_xdmf_reader")=0D=0A+=09 =
(("test_fluentcffreader") "_test_fluentcffreader")=0D=0A+=09 ((=
"test_gambitreader") "_test_gambitreader")=0D=0A+=09 (("test_gaussi=
an_cubes_reader") "_test_gaussian_cubes_reader")=0D=0A+=09 (("test_=
gesignareader") "_test_gesignareader")=0D=0A+=09 (("test_pdbreader"=
) "_test_pdbreader")=0D=0A+=09 (("test_particle_reader") "_test_par=
ticle_reader")=0D=0A+=09 (("test_prostar_reader") "_test_prostar_re=
ader"))))=0D=0A+=09 ;; test phase writes files to $HOME=0D=0A+=09 (add-be=
fore 'check 'redirect-HOME=0D=0A+=09 (lambda _=0D=0A+=09 (setenv "H=
OME" "/tmp"))))))=0D=0A (home-page "https://docs.pyvista.org/")=0D=0A=
(synopsis "3D plotting and mesh analysis through VTK")=0D=0A (de=
scription=0D=0A=0D=0Abase-commit: 20b1613484f512649f919d89285e98199859249=
7=0D=0A--=20=0D=0A2.46.0=0D=0A=0D=0A
Content-Disposition: inline Content-Transfer-Encoding: quoted-printable MIME-Version: 1.0 X-Mailer: MIME-tools 5.505 (Entity 5.505) Content-Type: text/plain; charset=utf-8 X-Loop: help-debbugs@HIDDEN From: help-debbugs@HIDDEN (GNU bug Tracking System) To: reza <reza@HIDDEN> Subject: bug#74974: Acknowledgement ([PATCH] gnu: python-pyvista: Update to 0.44.2.) Message-ID: <handler.74974.B.173462384927201.ack <at> debbugs.gnu.org> References: <01020193dfa340c5-5d9be2f8-5b55-40a2-be94-02f31f7d3cc0-000000@HIDDEN> X-Gnu-PR-Message: ack 74974 X-Gnu-PR-Package: guix-patches X-Gnu-PR-Keywords: patch Reply-To: 74974 <at> debbugs.gnu.org Date: Thu, 19 Dec 2024 15:58:02 +0000 Thank you for filing a new bug report with debbugs.gnu.org. This is an automatically generated reply to let you know your message has been received. Your message is being forwarded to the package maintainers and other interested parties for their attention; they will reply in due course. As you requested using X-Debbugs-CC, your message was also forwarded to Lars-Dominik Braun <lars@HIDDEN>, Marius Bakke <marius@HIDDEN>, Munyoki= Kilyungi <me@HIDDEN>, Sharlatan Hellseher <sharlatanus@HIDDEN= om>, Tanguy Le Carrour <tanguy@HIDDEN>, jgart <jgart@HIDDEN> (after having been given a bug report number, if it did not have one). Your message has been sent to the package maintainer(s): guix-patches@HIDDEN If you wish to submit further information on this problem, please send it to 74974 <at> debbugs.gnu.org. Please do not send mail to help-debbugs@HIDDEN unless you wish to report a problem with the Bug-tracking system. --=20 74974: https://debbugs.gnu.org/cgi/bugreport.cgi?bug=3D74974 GNU Bug Tracking System Contact help-debbugs@HIDDEN with problems
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