From unknown Thu Jun 19 14:07:54 2025 X-Loop: help-debbugs@gnu.org Subject: [bug#74974] [PATCH] gnu: python-pyvista: Update to 0.44.2. Resent-From: reza Original-Sender: "Debbugs-submit" Resent-CC: lars@6xq.net, marius@gnu.org, me@bonfacemunyoki.com, sharlatanus@gmail.com, tanguy@bioneland.org, jgart@dismail.de, guix-patches@gnu.org Resent-Date: Thu, 19 Dec 2024 15:58:02 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: report 74974 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 74974@debbugs.gnu.org Cc: reza , Lars-Dominik Braun , Marius Bakke , Munyoki Kilyungi , Sharlatan Hellseher , Tanguy Le Carrour , jgart X-Debbugs-Original-To: guix-patches@gnu.org X-Debbugs-Original-Xcc: Lars-Dominik Braun , Marius Bakke , Munyoki Kilyungi , Sharlatan Hellseher , Tanguy Le Carrour , jgart Received: via spool by submit@debbugs.gnu.org id=B.173462384927201 (code B ref -1); Thu, 19 Dec 2024 15:58:02 +0000 Received: (at submit) by debbugs.gnu.org; 19 Dec 2024 15:57:29 +0000 Received: from localhost ([127.0.0.1]:39757 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1tOIu0-00074e-Iw for submit@debbugs.gnu.org; Thu, 19 Dec 2024 10:57:29 -0500 Received: from lists.gnu.org ([209.51.188.17]:41894) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from <01020193dfa340c5-5d9be2f8-5b55-40a2-be94-02f31f7d3cc0-000000@mail.housseini.me>) id 1tOItx-00074U-By for submit@debbugs.gnu.org; Thu, 19 Dec 2024 10:57:27 -0500 Received: from eggs.gnu.org ([2001:470:142:3::10]) by lists.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.90_1) (envelope-from <01020193dfa340c5-5d9be2f8-5b55-40a2-be94-02f31f7d3cc0-000000@mail.housseini.me>) id 1tOItw-0007Nq-F7 for guix-patches@gnu.org; Thu, 19 Dec 2024 10:57:24 -0500 Received: from a2-94.smtp-out.eu-west-1.amazonses.com ([54.240.2.94]) by eggs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_CBC_SHA1:128) (Exim 4.90_1) (envelope-from <01020193dfa340c5-5d9be2f8-5b55-40a2-be94-02f31f7d3cc0-000000@mail.housseini.me>) id 1tOItu-0007h8-5V for guix-patches@gnu.org; Thu, 19 Dec 2024 10:57:24 -0500 DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/simple; s=tsl3ypnlx3orlf3fv2rkjjc5b3u22mve; d=housseini.me; t=1734623838; h=Subject:From:To:Cc:Date:Mime-Version:Content-Type:Content-Transfer-Encoding:References:Message-Id; bh=5ugufU2n7lOkF+Rek2T6Lr4rVOfiM+dDNWFf4wVHl0c=; b=WozmhmsaeSyfR6Jf2LqL51TiLrMPkMuJIeyCk+VKSoy1xeaHNw3nCrnYGYZ2r1Ar IBBWUSjLqPH6CB0LDsSDUhlq0DwmhLSJY+SlqIB5F0qZMJL1qBzAxqYtJvFJbCp94rQ HF0DqjFneia2KWzka93GIkdt9tdV6jow7/8MxbRY= DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/simple; s=uku4taia5b5tsbglxyj6zym32efj7xqv; d=amazonses.com; t=1734623838; h=Subject:From:To:Cc:Date:Mime-Version:Content-Type:Content-Transfer-Encoding:References:Message-Id:Feedback-ID; bh=5ugufU2n7lOkF+Rek2T6Lr4rVOfiM+dDNWFf4wVHl0c=; b=CxluR9hBMkyUVeQTgQxl1z0Yp/uN87z5/jwQfD5VNWPr/nO7fjU3+3dSgbgbiRQj xQsHCf//oWIMkuKqwdLqdgCY9V5L8EGy7sU2zDD/8wlV1zX7My2fT/1mOKGOzCxuWLx CGJKedNjgw63DxObJskzi0DNyZQqA/A+ywM1kW1U= From: reza Date: Thu, 19 Dec 2024 15:57:18 +0000 Mime-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: quoted-printable References: X-Mailer: Amazon WorkMail Thread-Index: AQHbUi6t1j+RxePeQ2GSYxVOo0AgKQ== Thread-Topic: [PATCH] gnu: python-pyvista: Update to 0.44.2. 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List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -2.3 (--) * 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 From unknown Thu Jun 19 14:07:54 2025 X-Loop: help-debbugs@gnu.org Subject: [bug#74974] [PATCH] gnu: python-pyvista: Update to 0.44.2. References: <01020193dfa340c5-5d9be2f8-5b55-40a2-be94-02f31f7d3cc0-000000@eu-west-1.amazonses.com> In-Reply-To: <01020193dfa340c5-5d9be2f8-5b55-40a2-be94-02f31f7d3cc0-000000@eu-west-1.amazonses.com> Resent-From: Lars Bilke Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Thu, 13 Feb 2025 15:04:01 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 74974 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: 74974@debbugs.gnu.org Cc: mail@cbaines.net, reza@housseini.me Received: via spool by 74974-submit@debbugs.gnu.org id=B74974.173945899129200 (code B ref 74974); Thu, 13 Feb 2025 15:04:01 +0000 Received: (at 74974) by debbugs.gnu.org; 13 Feb 2025 15:03:11 +0000 Received: from localhost ([127.0.0.1]:44900 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1tiakA-0007au-QG for submit@debbugs.gnu.org; Thu, 13 Feb 2025 10:03:11 -0500 Received: from mailgate5.ufz.de ([141.65.7.212]:46010 helo=mailgate.ufz.de) by debbugs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_256_GCM_SHA384:256) (Exim 4.84_2) (envelope-from ) id 1tiak7-0007ak-Jt for 74974@debbugs.gnu.org; Thu, 13 Feb 2025 10:03:08 -0500 Received: from imap.intranet.ufz.de (dcs1.intranet.ufz.de [141.65.125.135]) by mailgate.ufz.de (Mailgate5-UFZ) with ESMTP id C435716048A; Thu, 13 Feb 2025 16:03:05 +0100 (CET) MIME-version: 1.0 Content-transfer-encoding: 7BIT Content-type: text/plain; markup=markdown Received: from conversion-daemon.imap.intranet.ufz.de by imap.intranet.ufz.de (Oracle Communications Messaging Server 8.0.2.6.20200227 64bit (built Feb 27 2020)) id <0SRM00300MKLTB00@imap.intranet.ufz.de>; Thu, 13 Feb 2025 16:03:05 +0100 (CET) Received: from smtp1.ufz.de ([141.65.7.216]) by imap.intranet.ufz.de (Oracle Communications Messaging Server 8.0.2.6.20200227 64bit (built Feb 27 2020)) with ESMTPS id <0SRM00FP1N53HZ30@imap.intranet.ufz.de>; Thu, 13 Feb 2025 16:03:03 +0100 (CET) Received: from [100.99.158.7] (unknown [141.65.34.101]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) (No client certificate requested) by smtp1.ufz.de (smtp1-UFZ) with ESMTPSA id 6541880087; Thu, 13 Feb 2025 16:03:03 +0100 (CET) Date: Thu, 13 Feb 2025 16:03:03 +0100 From: Lars Bilke Message-id: <11A92411-17EB-4C27-832D-46678A372EC0@ufz.de> X-Mailer: MailMate (2.0r6203) X-Spam-Score: -2.3 (--) X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -3.3 (---) Dear Reza, I have checked your patch and it works perfect. The enabled tests (5921 passed, 630 skipped) are a huge improvement! Maybe Christopher (in cc) may have a look at this patch too. Thanks a lot! Lars From unknown Thu Jun 19 14:07:54 2025 X-Loop: help-debbugs@gnu.org Subject: [bug#74974] [PATCH] gnu: python-pyvista: Update to 0.44.2. Resent-From: reza Original-Sender: "Debbugs-submit" Resent-CC: guix-patches@gnu.org Resent-Date: Tue, 18 Feb 2025 08:42:01 +0000 Resent-Message-ID: Resent-Sender: help-debbugs@gnu.org X-GNU-PR-Message: followup 74974 X-GNU-PR-Package: guix-patches X-GNU-PR-Keywords: patch To: Lars Bilke , 74974@debbugs.gnu.org <74974@debbugs.gnu.org> Cc: mail@cbaines.net Received: via spool by 74974-submit@debbugs.gnu.org id=B74974.173986807420622 (code B ref 74974); Tue, 18 Feb 2025 08:42:01 +0000 Received: (at 74974) by debbugs.gnu.org; 18 Feb 2025 08:41:14 +0000 Received: from localhost ([127.0.0.1]:54462 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1tkJAH-0005MX-L3 for submit@debbugs.gnu.org; Tue, 18 Feb 2025 03:41:13 -0500 Received: from a7-27.smtp-out.eu-west-1.amazonses.com ([54.240.7.27]:54563) by debbugs.gnu.org with esmtps (TLS1.2:ECDHE_RSA_AES_128_CBC_SHA1:128) (Exim 4.84_2) (envelope-from <010201951837c7aa-70f4a175-7972-4053-8c05-478a3f3045c8-000000@mail.housseini.me>) id 1tkJAE-0005Lr-Oi for 74974@debbugs.gnu.org; Tue, 18 Feb 2025 03:41:12 -0500 DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/simple; s=tsl3ypnlx3orlf3fv2rkjjc5b3u22mve; d=housseini.me; t=1739868064; h=Subject:From:To:Cc:Date:Mime-Version:Content-Type:Content-Transfer-Encoding:In-Reply-To:References:Message-Id; bh=lOn9O9PK5gTk5Njtz+1cUiLen8pGE3mMkJT6Pgw/tGs=; b=gUa76o/mtN62eh9ZKOa2s0VrGZkNg2hvKvysXpnt3w6EZTAMYYJdYzJO74uK6rWp OqFBywCmsLTe/TSwS9goPSHLkPT5i1FhvW+uBlfk59GHHTh7GRP3lKx7oA463Lx/ltT go1fmFPXFSb51p6oHtcBJ/vD3E7eJDQxM5xbtQ7Y= DKIM-Signature: v=1; a=rsa-sha256; q=dns/txt; c=relaxed/simple; s=uku4taia5b5tsbglxyj6zym32efj7xqv; d=amazonses.com; t=1739868064; h=Subject:From:To:Cc:Date:Mime-Version:Content-Type:Content-Transfer-Encoding:In-Reply-To:References:Message-Id:Feedback-ID; bh=lOn9O9PK5gTk5Njtz+1cUiLen8pGE3mMkJT6Pgw/tGs=; b=N6xCyC0iqvbaCVgA72jwTuRc2BVxIMVnlsFbh1AtSeNy3jXiP2Vz6AMGLDc+m41w vH55ZwZT8r9rkqmEMG4P06SyAqcu/Q3nsaFaGNmpm6XO3pOU1SiGoEpAOr+GKw/dr6n BAfTfUiGUcfkxOvfqtBSnqt8v1vCkQF7DXXjgs3U= From: reza Date: Tue, 18 Feb 2025 08:41:03 +0000 Mime-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 7bit In-Reply-To: <11A92411-17EB-4C27-832D-46678A372EC0@ufz.de> References: <11A92411-17EB-4C27-832D-46678A372EC0@ufz.de> <87ikp7ve5v.fsf@housseini.me> X-Mailer: Amazon WorkMail Thread-Index: AQHbfihknJYAI1OoSPWfj2C/xEip4ADuHM3W Thread-Topic: [PATCH] gnu: python-pyvista: Update to 0.44.2. X-Wm-Sent-Timestamp: 1739868062 Message-ID: <010201951837c7aa-70f4a175-7972-4053-8c05-478a3f3045c8-000000@eu-west-1.amazonses.com> Feedback-ID: ::1.eu-west-1.b24dn6frgCi6dh20skzbuMRr7UL8M6Soir/3ogtEjHQ=:AmazonSES X-SES-Outgoing: 2025.02.18-54.240.7.27 X-Spam-Score: 0.0 (/) X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -1.0 (-) Dear Lars > I have checked your patch and it works perfect. The enabled tests > (5921 passed, 630 skipped) are a huge improvement! Thanks for taking the time to review it. I asked on the bug tracker for the remaining tests which mainly depend on internet access [1]. There may be a possibility to enable more tests when downloading the test data separately as mentioned in the issue. Also I am now mostly disabling tests in pytest with flags --ignore for files and --deselect for single tests, maybe I can spare some time to send an updated patch. > Maybe Christopher (in cc) may have a look at this patch too. > > Thanks a lot! > > Lars Best regards, Reza [1] https://github.com/pyvista/pyvista/issues/7004 From unknown Thu Jun 19 14:07:54 2025 MIME-Version: 1.0 X-Mailer: MIME-tools 5.505 (Entity 5.505) X-Loop: help-debbugs@gnu.org From: help-debbugs@gnu.org (GNU bug Tracking System) To: reza Subject: bug#74974: closed () Message-ID: References: <8734g21bx9.fsf@cbaines.net> <01020193dfa340c5-5d9be2f8-5b55-40a2-be94-02f31f7d3cc0-000000@eu-west-1.amazonses.com> X-Gnu-PR-Message: they-closed 74974 X-Gnu-PR-Package: guix-patches X-Gnu-PR-Keywords: patch Reply-To: 74974@debbugs.gnu.org Date: Tue, 25 Feb 2025 11:50:02 +0000 Content-Type: multipart/mixed; boundary="----------=_1740484202-16863-1" This is a multi-part message in MIME format... ------------=_1740484202-16863-1 Content-Disposition: inline Content-Transfer-Encoding: quoted-printable Content-Type: text/plain; charset="utf-8" Your bug report #74974: [PATCH] gnu: python-pyvista: Update to 0.44.2. which was filed against the guix-patches package, has been closed. The explanation is attached below, along with your original report. If you require more details, please reply to 74974@debbugs.gnu.org. --=20 74974: https://debbugs.gnu.org/cgi/bugreport.cgi?bug=3D74974 GNU Bug Tracking System Contact help-debbugs@gnu.org with problems ------------=_1740484202-16863-1 Content-Type: message/rfc822 Content-Disposition: inline Content-Transfer-Encoding: 7bit Received: (at 74974-done) by debbugs.gnu.org; 25 Feb 2025 11:49:59 +0000 Received: from localhost ([127.0.0.1]:45092 helo=debbugs.gnu.org) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1tmtRm-0004Nc-SL for submit@debbugs.gnu.org; Tue, 25 Feb 2025 06:49:59 -0500 Received: from mira.cbaines.net ([2a01:7e00:e000:2f8:fd4d:b5c7:13fb:3d27]:33145) by debbugs.gnu.org with esmtp (Exim 4.84_2) (envelope-from ) id 1tmtRk-0004NU-V5 for 74974-done@debbugs.gnu.org; Tue, 25 Feb 2025 06:49:57 -0500 Received: from localhost (unknown [IPv6:2a0b:89c1:3::a36e]) by mira.cbaines.net (Postfix) with ESMTPSA id BEB5E27BBE2 for <74974-done@debbugs.gnu.org>; Tue, 25 Feb 2025 11:49:55 +0000 (GMT) Received: from fang (localhost [127.0.0.1]) by localhost (OpenSMTPD) with ESMTP id 8c199621 for <74974-done@debbugs.gnu.org>; Tue, 25 Feb 2025 11:49:55 +0000 (UTC) From: Christopher Baines To: 74974-done@debbugs.gnu.org Date: Tue, 25 Feb 2025 11:49:54 +0000 Message-ID: <8734g21bx9.fsf@cbaines.net> MIME-Version: 1.0 Content-Type: multipart/signed; boundary="=-=-="; micalg=pgp-sha512; protocol="application/pgp-signature" X-Spam-Score: 4.3 (++++) X-Spam-Report: Spam detection software, running on the system "debbugs.gnu.org", has NOT identified this incoming email as spam. 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From: =?UTF-8?Q?reza?= To: =?UTF-8?Q?guix-patches=40gnu=2Eorg?= Date: Thu, 19 Dec 2024 15:57:18 +0000 Mime-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: quoted-printable References: X-Mailer: Amazon WorkMail Thread-Index: AQHbUi6t1j+RxePeQ2GSYxVOo0AgKQ== Thread-Topic: [PATCH] gnu: python-pyvista: Update to 0.44.2. X-Wm-Sent-Timestamp: 1734623837 X-Original-Mailer: git-send-email 2.46.0 X-Debbugs-Cc: Lars-Dominik Braun , Marius Bakke , Munyoki Kilyungi , Sharlatan Hellseher , Tanguy Le Carrour , jgart Message-ID: <01020193dfa340c5-5d9be2f8-5b55-40a2-be94-02f31f7d3cc0-000000@eu-west-1.amazonses.com> Feedback-ID: ::1.eu-west-1.b24dn6frgCi6dh20skzbuMRr7UL8M6Soir/3ogtEjHQ=:AmazonSES X-SES-Outgoing: 2024.12.19-54.240.2.94 Received-SPF: pass client-ip=54.240.2.94; envelope-from=01020193dfa340c5-5d9be2f8-5b55-40a2-be94-02f31f7d3cc0-000000@mail.housseini.me; helo=a2-94.smtp-out.eu-west-1.amazonses.com X-Spam_score_int: -20 X-Spam_score: -2.1 X-Spam_bar: -- X-Spam_report: (-2.1 / 5.0 requ) BAYES_00=-1.9, DKIM_SIGNED=0.1, DKIM_VALID=-0.1, DKIM_VALID_AU=-0.1, DKIM_VALID_EF=-0.1, RCVD_IN_DNSWL_NONE=-0.0001, RCVD_IN_VALIDITY_CERTIFIED_BLOCKED=0.001, RCVD_IN_VALIDITY_RPBL_BLOCKED=0.001, SPF_HELO_NONE=0.001, SPF_PASS=-0.001 autolearn=ham autolearn_force=no X-Spam_action: no action X-Spam-Score: -1.3 (-) X-Debbugs-Envelope-To: submit Cc: =?UTF-8?Q?reza?= X-BeenThere: debbugs-submit@debbugs.gnu.org X-Mailman-Version: 2.1.18 Precedence: list List-Id: List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , Errors-To: debbugs-submit-bounces@debbugs.gnu.org Sender: "Debbugs-submit" X-Spam-Score: -2.3 (--) * 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 ------------=_1740484202-16863-1--