[med-svn] [Git][med-team/pyranges][master] 3 commits: Adapt to numpy 1.24

[Andreas Tille (@tille)]

Andreas Tille pushed to branch master at Debian Med / pyranges


Commits:
f97c6011 by Andreas Tille at 2023-01-14T16:31:28+01:00
Adapt to numpy 1.24

- - - - -
f2160005 by Andreas Tille at 2023-01-14T16:31:45+01:00
routine-update: Standards-Version: 4.6.2

- - - - -
e82b7443 by Andreas Tille at 2023-01-14T16:31:48+01:00
routine-update: No tab in license text

- - - - -


5 changed files:

- debian/changelog
- debian/control
- debian/copyright
- + debian/patches/numpy_1.24.patch
- debian/patches/series


Changes:

=====================================
debian/changelog
=====================================
@@ -1,3 +1,13 @@
+pyranges (0.0.111+ds-4) UNRELEASED; urgency=medium
+
+  * Team upload.
+  * Adapt to numpy 1.24
+    Closes: #1028852
+  * Standards-Version: 4.6.2 (routine-update)
+  * No tab in license text (routine-update)
+
+ -- Andreas Tille <tille at debian.org>  Sat, 14 Jan 2023 16:30:10 +0100
+
 pyranges (0.0.111+ds-3) unstable; urgency=medium
 
   * Team Upload.


=====================================
debian/control
=====================================
@@ -16,7 +16,7 @@ Build-Depends: debhelper-compat (= 13),
                python3-hypothesis,
                bedtools,
                samtools
-Standards-Version: 4.6.1
+Standards-Version: 4.6.2
 Vcs-Browser: https://salsa.debian.org/med-team/pyranges
 Vcs-Git: https://salsa.debian.org/med-team/pyranges.git
 Homepage: https://github.com/biocore-ntnu/pyranges


=====================================
debian/copyright
=====================================
@@ -2,9 +2,9 @@ Format: https://www.debian.org/doc/packaging-manuals/copyright-format/1.0/
 Upstream-Name: PyRanges
 Source: https://github.com/biocore-ntnu/pyranges
 Files-Excluded: tests/test_data/test_sorted.bam.bai
- 		tests/test_data/test_sorted.bam
- 		pyranges/example_data/control.bam.bai
- 		pyranges/example_data/control.bam
+                 tests/test_data/test_sorted.bam
+                 pyranges/example_data/control.bam.bai
+                 pyranges/example_data/control.bam
 
 Files: *
 Copyright: 2019 Endre Bakken Stovner


=====================================
debian/patches/numpy_1.24.patch
=====================================
@@ -0,0 +1,16 @@
+Description: Adapt to numpy 1.24
+Bug-Debian: https://bugs.debian.org/1028852
+Author: Andreas Tille <tille at debian.org>
+Last-Update: Sat, 14 Jan 2023 16:30:10 +0100
+
+--- a/tests/test_binary.py
++++ b/tests/test_binary.py
+@@ -232,7 +232,7 @@ def test_coverage(gr, gr2, strandedness)
+         names=
+         "Chromosome Start End Name Score Strand NumberOverlaps FractionOverlaps"
+         .split(),
+-        dtype={"FractionOverlap": np.float},
++        dtype={"FractionOverlap": float},
+         sep="\t")
+ 
+     result = gr.coverage(gr2, strandedness=strandedness)


=====================================
debian/patches/series
=====================================
@@ -1,2 +1,3 @@
 fix_dtype.patch
 reorder.patch
+numpy_1.24.patch



View it on GitLab: https://salsa.debian.org/med-team/pyranges/-/compare/0e19f822b0415b829bed9f69a0dbad8002a126cd...e82b74431b59ca9200f038437ad2edd7fa0d9441

-- 
View it on GitLab: https://salsa.debian.org/med-team/pyranges/-/compare/0e19f822b0415b829bed9f69a0dbad8002a126cd...e82b74431b59ca9200f038437ad2edd7fa0d9441
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