[med-svn] [Git][med-team/sepp][master] 3 commits: New upstream version 4.5.5+dfsg

[Pierre Gruet (@pgt)]

Pierre Gruet pushed to branch master at Debian Med / sepp


Commits:
5d1e37b4 by Pierre Gruet at 2024-09-30T20:19:08+02:00
New upstream version 4.5.5+dfsg
- - - - -
9fdcab31 by Pierre Gruet at 2024-09-30T20:19:34+02:00
Update upstream source from tag 'upstream/4.5.5+dfsg'

Update to upstream version '4.5.5+dfsg'
with Debian dir 9a26be4e9f37dad3f8242ec8614c74c1d0d6deee
- - - - -
d5ebcef8 by Pierre Gruet at 2024-09-30T20:20:32+02:00
Upload to unstable

- - - - -


5 changed files:

- CHANGELOG.md
- debian/changelog
- sepp/__init__.py
- sepp/tree.py
- setup.py


Changes:

=====================================
CHANGELOG.md
=====================================
@@ -1,3 +1,5 @@
+* Version 4.5.5:
+  * Keep backwards compatible with dendropy < 4.5.2
 * Version 4.5.4:
   * Slight improvements in logging key information
 * Version 4.5.3:


=====================================
debian/changelog
=====================================
@@ -1,3 +1,9 @@
+sepp (4.5.5+dfsg-1) unstable; urgency=medium
+
+  * New upstream version 4.5.5+dfsg
+
+ -- Pierre Gruet <pgt at debian.org>  Mon, 30 Sep 2024 20:20:19 +0200
+
 sepp (4.5.4+dfsg-1) unstable; urgency=medium
 
   * New upstream version 4.5.4+dfsg


=====================================
sepp/__init__.py
=====================================
@@ -27,7 +27,7 @@ __all__ = ['algorithm', 'alignment', 'backtranslate',
            'jobs', 'math_utils', 'problem', 'scheduler',
            'scratch', 'tree', 'get_logger', 'is_temp_kept', 'version']
 
-version = "4.5.4"
+version = "4.5.5"
 _DEBUG = ("SEPP_DEBUG" in os.environ) and \
     (os.environ["SEPP_DEBUG"].lower() == "true")
 


=====================================
sepp/tree.py
=====================================
@@ -256,7 +256,12 @@ for l2 in sys.stdin.readlines():
 
         nr.edge.length = None
         nr.parent_node = None
-        nr._convert_node_to_root_polytomy()
+        try:
+            nr._convert_node_to_root_polytomy()
+        except AttributeError:
+            from dendropy.datamodel.treemodel import \
+                _convert_node_to_root_polytomy
+            _convert_node_to_root_polytomy(nr)
         t1 = PhylogeneticTree(Tree(seed_node=nr))
         # temp we could speed this up,
         # by telling the Phylogenetic tree how many leaves it has


=====================================
setup.py
=====================================
@@ -29,7 +29,7 @@ from setuptools import find_packages
 from distutils.core import setup, Command
 
 use_setuptools(version="0.6.24")
-version = "4.5.4"
+version = "4.5.5"
 
 
 def get_tools_dir(where):



View it on GitLab: https://salsa.debian.org/med-team/sepp/-/compare/90e9581b16e22d578d2d9cb9a4c5b754007d8b45...d5ebcef87eaf31ccc2b89f6bf2424733d66eaae7

-- 
View it on GitLab: https://salsa.debian.org/med-team/sepp/-/compare/90e9581b16e22d578d2d9cb9a4c5b754007d8b45...d5ebcef87eaf31ccc2b89f6bf2424733d66eaae7
You're receiving this email because of your account on salsa.debian.org.


-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://alioth-lists.debian.net/pipermail/debian-med-commit/attachments/20240930/0927b79a/attachment-0001.htm>