[med-svn] [Git][med-team/python-bx][master] 4 commits: Fix import statement s/cookbook/bx.cookbook/

[Andreas Tille (@tille)]

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


Commits:
b0b0b724 by Andreas Tille at 2024-04-15T10:08:34+02:00
Fix import statement s/cookbook/bx.cookbook/

- - - - -
cfbc7fe7 by Andreas Tille at 2024-04-15T10:09:48+02:00
Psyco is only available for Python <= 2.6

- - - - -
fc7241cb by Andreas Tille at 2024-04-15T10:10:11+02:00
routine-update: Standards-Version: 4.7.0

- - - - -
2214ed5b by Andreas Tille at 2024-04-15T10:15:30+02:00
routine-update: Ready to upload to unstable

- - - - -


5 changed files:

- debian/changelog
- debian/control
- + debian/patches/fix_import_cookbook.patch
- + debian/patches/no_psyco.patch
- debian/patches/series


Changes:

=====================================
debian/changelog
=====================================
@@ -1,3 +1,13 @@
+python-bx (0.11.0-4) unstable; urgency=medium
+
+  * Team upload.
+  * Fix import statement s/cookbook/bx.cookbook/
+  * Psyco is only available for Python <= 2.6
+    Closes: #1068996
+  * Standards-Version: 4.7.0 (routine-update)
+
+ -- Andreas Tille <tille at debian.org>  Mon, 15 Apr 2024 10:11:31 +0200
+
 python-bx (0.11.0-3) unstable; urgency=medium
 
   * Added patch to correct an include. Closes: #1066569


=====================================
debian/control
=====================================
@@ -16,7 +16,7 @@ Build-Depends: debhelper-compat (= 13),
                python3-pytest-cython <!nocheck>,
                python3-numpy <!nocheck>,
                cython3
-Standards-Version: 4.6.2
+Standards-Version: 4.7.0
 Vcs-Browser: https://salsa.debian.org/med-team/python-bx
 Vcs-Git: https://salsa.debian.org/med-team/python-bx.git
 Homepage: https://github.com/bxlab/bx-python


=====================================
debian/patches/fix_import_cookbook.patch
=====================================
@@ -0,0 +1,16 @@
+Description: Fix import statement s/cookbook/bx.cookbook/
+Bug-Debian: https://bugs.debian.org/1068996
+Author: Andreas Tille <tille at debian.org>
+Last-Updat: Mon, 15 Apr 2024 08:27:39 +0200
+
+--- a/scripts/maf_tile_2.py
++++ b/scripts/maf_tile_2.py
+@@ -31,7 +31,7 @@ usage: %prog list,of,species,to,keep seq
+ 
+ import sys
+ 
+-from cookbook import doc_optparse
++from bx.cookbook import doc_optparse
+ 
+ import bx.align as align
+ import bx.align.maf as maf


=====================================
debian/patches/no_psyco.patch
=====================================
@@ -0,0 +1,20 @@
+Description: psyco is only available for Python <= 2.6
+Bug-Debian: https://bugs.debian.org/1068996
+Author: Andreas Tille <tille at debian.org>
+Last-Updat: Mon, 15 Apr 2024 08:27:39 +0200
+
+--- a/scripts/maf_word_frequency.py
++++ b/scripts/maf_word_frequency.py
+@@ -12,12 +12,8 @@ usage: %prog n < maf_file
+ import string
+ import sys
+ 
+-import psyco
+-
+ from bx.align import maf
+ 
+-psyco.profile()
+-
+ 
+ def __main__():
+     motif_len = int(sys.argv[1])


=====================================
debian/patches/series
=====================================
@@ -3,3 +3,5 @@ post-install-testing
 pytest8
 shebang.patch
 fix_BIN_OFFSETS_MAX
+fix_import_cookbook.patch
+no_psyco.patch



View it on GitLab: https://salsa.debian.org/med-team/python-bx/-/compare/c11ebb53f0cd21910117267f5d44d8270a7202c7...2214ed5bc1ca40d50972672132789fd5935f0421

-- 
View it on GitLab: https://salsa.debian.org/med-team/python-bx/-/compare/c11ebb53f0cd21910117267f5d44d8270a7202c7...2214ed5bc1ca40d50972672132789fd5935f0421
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