[med-svn] [Git][med-team/python-skbio][master] Fix some more numpy issues

[Andreas Tille (@tille)]

Andreas Tille pushed to branch master at Debian Med / python-skbio


Commits:
25c2f7dc by Andreas Tille at 2023-01-29T11:45:30+01:00
Fix some more numpy issues

- - - - -


1 changed file:

- debian/patches/numpy-1.24.patch


Changes:

=====================================
debian/patches/numpy-1.24.patch
=====================================
@@ -29,6 +29,15 @@ Forwarded: https://github.com/biocore/scikit-bio/issues/1839
  
          # invalid input type (non-numpy.ndarray input)
          with self.assertRaisesRegex(TypeError, r'tuple'):
+@@ -885,7 +885,7 @@ class TestSequence(TestSequenceBase, Rea
+                         metadata={'id': 'id9', 'description': 'dsc9'},
+                         positional_metadata={'quality': [0, 1, 2, 3, 15, 14,
+                                                          13, 9]})
+-        self.assertEqual(seq[np.array([0, 1, 2, 3, 15, 14, 13, 9])], eseq)
++        self.assertEqual(seq[np.array([0, 1, 2, 3, 15, 14, 13, 9], dtype=np.int32)], eseq)
+ 
+     def test_getitem_with_numpy_index_no_positional_metadata(self):
+         s = "0123456789abcdef"
 @@ -2212,7 +2212,7 @@ class TestSequence(TestSequenceBase, Rea
                      yield i
                  else:
@@ -45,7 +54,7 @@ Forwarded: https://github.com/biocore/scikit-bio/issues/1839
      qual_str = ' '.join(chunks)
      try:
 -        quality = np.asarray(qual_str.split(), dtype=int)
-+        quality = np.asarray(qual_str.split(), dtype=int64)
++        quality = np.asarray(qual_str.split(), dtype=np.int64)
      except ValueError:
          raise QUALFormatError(
              "Could not convert quality scores to integers:\n%s"



View it on GitLab: https://salsa.debian.org/med-team/python-skbio/-/commit/25c2f7dc92b4a683f456bceeb43f8c517a59595c

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View it on GitLab: https://salsa.debian.org/med-team/python-skbio/-/commit/25c2f7dc92b4a683f456bceeb43f8c517a59595c
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