[med-svn] [Git][med-team/gasic][master] 7 commits: routine-update: Packaging update

[Andreas Tille (@tille)]

Andreas Tille pushed to branch master at Debian Med / gasic


Commits:
4a97948e by Andreas Tille at 2022-12-29T17:05:01+01:00
routine-update: Packaging update

- - - - -
6d9b8b58 by Andreas Tille at 2022-12-29T17:05:01+01:00
routine-update: Standards-Version: 4.6.2

- - - - -
fed5a295 by Andreas Tille at 2022-12-29T17:05:01+01:00
routine-update: debhelper-compat 13

- - - - -
a832ae4d by Andreas Tille at 2022-12-29T17:05:49+01:00
Apply multi-arch hints.
+ gasic-examples: Add Multi-Arch: foreign.

Changes-By: apply-multiarch-hints

- - - - -
f1e0ce0f by Andreas Tille at 2022-12-29T17:05:56+01:00
routine-update: watch file standard 4

- - - - -
f579e03f by Andreas Tille at 2022-12-29T18:38:01+01:00
Fix AttributeError: module 'numpy' has no attribute 'float'.

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0004cc7c by Andreas Tille at 2022-12-29T18:40:39+01:00
Upload to unstable

- - - - -


5 changed files:

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


Changes:

=====================================
debian/changelog
=====================================
@@ -1,3 +1,13 @@
+gasic (0.0.r19-8) unstable; urgency=medium
+
+  * Standards-Version: 4.6.2 (routine-update)
+  * debhelper-compat 13 (routine-update)
+  * watch file standard 4 (routine-update)
+  * Fix AttributeError: module 'numpy' has no attribute 'float'.
+    Closes: #1027214
+
+ -- Andreas Tille <tille at debian.org>  Thu, 29 Dec 2022 18:38:14 +0100
+
 gasic (0.0.r19-7) unstable; urgency=medium
 
   * Team upload.


=====================================
debian/control
=====================================
@@ -5,11 +5,11 @@ Uploaders: Andreas Tille <tille at debian.org>,
            Roland Fehrenbacher <rf at q-leap.de>
 Section: science
 Priority: optional
-Build-Depends: debhelper-compat (= 12),
+Build-Depends: debhelper-compat (= 13),
                dh-python,
                python3,
                bowtie2
-Standards-Version: 4.5.0
+Standards-Version: 4.6.2
 Vcs-Browser: https://salsa.debian.org/med-team/gasic
 Vcs-Git: https://salsa.debian.org/med-team/gasic.git
 Homepage: http://sourceforge.net/projects/gasic/
@@ -44,6 +44,7 @@ Package: gasic-examples
 Architecture: all
 Depends: ${misc:Depends}
 Enhances: gasic
+Multi-Arch: foreign
 Description: genome abundance similarity correction (example data)
  One goal of sequencing based metagenomic analysis is the quantitative
  taxonomic assessment of microbial community compositions. However, the


=====================================
debian/patches/numpy_1.24.patch
=====================================
@@ -0,0 +1,17 @@
+Author: Andreas Tille <tille at debian.org>
+Last-Update: Thu, 29 Dec 2022 11:21:48 +0100
+Bug-Debian: https://bugs.debian.org/1027214
+Description: Fix AttributeError: module 'numpy' has no attribute 'float'.
+ with numpy/1.24.1
+
+--- a/core/gasic.py
++++ b/core/gasic.py
+@@ -44,7 +44,7 @@ def similarity_correction(sim, reads, N)
+    
+     # transform reads to abundances and rename similarity matrix
+     A = sim
+-    r = reads.astype(np.float) / N
++    r = reads.astype(float) / N
+ 
+     rng = list(range(len(reads)))
+     


=====================================
debian/patches/series
=====================================
@@ -1,3 +1,4 @@
 2to3.patch
 use_seqan_mason.patch
 fix_example_indentation.patch
+numpy_1.24.patch


=====================================
debian/watch
=====================================
@@ -1,3 +1,3 @@
-version=3
+version=4
 opts=uversionmangle=s/^/0.0./ \
   https://sf.net/gasic/gasic_(r[0-9]+)\.(?:tgz|tar\.gz|tar\.xz|tar\.bz2)



View it on GitLab: https://salsa.debian.org/med-team/gasic/-/compare/51db8274363337ad0015137118ad7b6b1bb71fb7...0004cc7c704ff6fef8ba427209749559d3250f6a

-- 
View it on GitLab: https://salsa.debian.org/med-team/gasic/-/compare/51db8274363337ad0015137118ad7b6b1bb71fb7...0004cc7c704ff6fef8ba427209749559d3250f6a
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