[med-svn] [Git][med-team/fastaq][master] 2 commits: Fix Python3.12 string syntax Closes: #1085573

[Andreas Tille (@tille)]

Andreas Tille pushed to branch master at Debian Med / fastaq


Commits:
3e06527d by Andreas Tille at 2024-12-06T21:43:45+01:00
Fix Python3.12 string syntax Closes: #1085573

- - - - -
73ea0252 by Andreas Tille at 2024-12-06T21:45:09+01:00
routine-update: Ready to upload to unstable

- - - - -


3 changed files:

- debian/changelog
- + debian/patches/python3.12-syntax.patch
- debian/patches/series


Changes:

=====================================
debian/changelog
=====================================
@@ -1,3 +1,10 @@
+fastaq (3.17.0-9) unstable; urgency=medium
+
+  * Fix Python3.12 string syntax
+    Closes: #1085573
+
+ -- Andreas Tille <tille at debian.org>  Fri, 06 Dec 2024 21:44:29 +0100
+
 fastaq (3.17.0-8) unstable; urgency=medium
 
   * Team upload.


=====================================
debian/patches/python3.12-syntax.patch
=====================================
@@ -0,0 +1,18 @@
+Description: Fix Python3.12 string syntax
+Bug-Debian: https://bugs.debian.org/1085573
+Author: Andreas Tille <tille at debian.org>
+Last-Update: 2024-06-06
+
+--- a/pyfastaq/sequences.py
++++ b/pyfastaq/sequences.py
+@@ -34,8 +34,8 @@ def file_reader(fname, read_quals=False)
+     '''Iterates over a FASTA or FASTQ file, yielding the next sequence in the file until there are no more sequences'''
+     f = utils.open_file_read(fname)
+     line = f.readline()
+-    phylip_regex = re.compile('^\s*[0-9]+\s+[0-9]+$')
+-    gbk_regex = re.compile('^LOCUS\s+\S')
++    phylip_regex = re.compile(r'^\s*[0-9]+\s+[0-9]+$')
++    gbk_regex = re.compile(r'^LOCUS\s+\S')
+ 
+     if line.startswith('>'):
+         seq = Fasta()


=====================================
debian/patches/series
=====================================
@@ -1,2 +1,3 @@
 tests
 remove-pkg_resources.patch
+python3.12-syntax.patch



View it on GitLab: https://salsa.debian.org/med-team/fastaq/-/compare/1eb95b1792d73384cd4422c79c13263caad56eb3...73ea02525ab1a30f66f84bd6592fdf1bd8bfbf83

-- 
View it on GitLab: https://salsa.debian.org/med-team/fastaq/-/compare/1eb95b1792d73384cd4422c79c13263caad56eb3...73ea02525ab1a30f66f84bd6592fdf1bd8bfbf83
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