python-xyz: python-mayavi: Update to 4.9.0.

* guix-science/packages/python-xyz.scm (python-mayavi)
  [source]: Update to 4.9.0.
  [arguments]<#:test-flags>: Remove test filters.
  <#:phases>: Refresh fix for requirements. Set home to writable location.
  [propagated-inputs]: Replace vtk-9.4 by vtk.
  [native-inputs]: Add python-{pytest-timeout,setuptools-scm}.

1 files changed, 16 insertions, 12 deletions

diff --git a/guix-science/packages/python-xyz.scm b/guix-science/packages/python-xyz.scm
index 61a6729..aa97819 100644
--- a/guix-science/packages/python-xyz.scm
+++ b/guix-science/packages/python-xyz.scm
@@ -969,7 +969,7 @@ As well as compression and disallowing duplicate keys.")
 (define-public python-mayavi
   (package
     (name "python-mayavi")
-    (version "4.8.3")
+    (version "4.9.0")
     (source
      (origin
        (method git-fetch)
@@ -977,28 +977,30 @@ As well as compression and disallowing duplicate keys.")
              (url "https://github.com/enthought/mayavi")
              (commit version)))
        (sha256
-        (base32 "0nzqy2z5kxkc6zwdhwgqgdxcrxd9ridq8wp1f9p7gkgjqbancybk"))))
+        (base32 "019x28j6p49n3z8pncybh1pq2a5j57jfjsvkd1ribkxya2dqjnm0"))))
     (build-system pyproject-build-system)
     (arguments
      (list
       #:test-flags
-      #~(list
-         ;; Ignore buggy tests.
-         "-k not import_tvtk_does_not_import_gui"
-         ;; Collect tests from all source modules.
-         "mayavi" "tvtk")
+      #~(list "mayavi" "tvtk")
       #:phases
       #~(modify-phases %standard-phases
           (add-after 'unpack 'fix-requirements
             (lambda _
               ;; Remove vtk, because it lacks package metadata.
-              (substitute* "mayavi/__init__.py"
-                ((".*vtk.*")
-                 ""))))
-          (add-after 'build 'start-xorg-server
+              (substitute* "setup.py"
+                (("install_requires=DEPENDENCIES.*,")
+                 "install_requires=DEPENDENCIES,"))))
+
+          (add-before 'build 'set-home
+            (lambda _
+              (setenv "HOME" (getcwd))))
+
+          (add-before 'build 'start-xorg-server
             (lambda _
               (system "Xvfb :99 -screen 0 1024x768x24 &")
               (setenv "DISPLAY" ":99")))
+
           (add-before 'check 'build-extensions
             (lambda _
               (invoke "python3" "setup.py" "build_ext" "--inplace"))))))
@@ -1011,12 +1013,14 @@ As well as compression and disallowing duplicate keys.")
                              python-pygments
                              python-traits
                              python-traitsui
-                             vtk-9.4))
+                             vtk))
     (native-inputs (list python-packaging
                          python-pillow
                          python-pyside-6
                          python-pytest
+                         python-pytest-timeout
                          python-setuptools
+                         python-setuptools-scm
                          xorg-server))
     (home-page "http://docs.enthought.com/mayavi/mayavi")
     (synopsis "3D scientific data visualization library and application")