Accepting request 874102 from devel:languages:python:numeric

OBS-URL: https://build.opensuse.org/request/show/874102
OBS-URL: https://build.opensuse.org/package/show/openSUSE:Factory/python-biopython?expand=0&rev=7

biopython-1.77.tar.gz

@@ -1,3 +0,0 @@
-version https://git-lfs.github.com/spec/v1
-oid sha256:fb1936e9ca9e7af8de1050e84375f23328e04b801063edf0ad73733494d8ec42
-size 16837021

biopython-1.78.tar.gz

@@ -0,0 +1,3 @@
+version https://git-lfs.github.com/spec/v1
+oid sha256:1ee0a0b6c2376680fea6642d5080baa419fd73df104a62d58a8baf7a8bbe4564
+size 16895184

python-biopython.changes

@@ -1,3 +1,25 @@
+-------------------------------------------------------------------
+Sat Feb 20 19:29:23 UTC 2021 - andy great <andythe_great@pm.me>
+
+- Update to version 1.7.8.
+  * The main change is that Bio.Alphabet is no longer used. In some
+    cases you will now have to specify expected letters, molecule 
+    type (DNA, RNA, protein), or gap character explicitly.
+  * Bio.SeqIO.parse() is faster with "fastq" format due to small 
+    improvements in the Bio.SeqIO.QualityIO module.
+  * The SeqFeature object's .extract() method can now be used for 
+    trans-spliced locations via an optional dictionary of references.
+  * As in recent releases, more of our code is now explicitly 
+    available under either our original "Biopython License Agreement",
+    or the very similar but more commonly used "3-Clause BSD License".
+    See the LICENSE.rst file for more details.
+  * Additionally, a number of small bugs and typos have been fixed
+    with additions to the test suite. There has been further work to
+    follow the Python PEP8, PEP257 and best practice standard coding
+    style, and all of the tests have been reformatted with the black
+    tool to match the main code base.
+- Skip python36 because numpy no longer support it.
+
 -------------------------------------------------------------------
 Tue Nov  3 15:58:16 UTC 2020 - Matej Cepl <mcepl@suse.com>
 

python-biopython.spec

@@ -1,7 +1,7 @@
 #
 # spec file for package python-biopython
 #
-# Copyright (c) 2020 SUSE LLC
+# Copyright (c) 2021 SUSE LLC
 #
 # All modifications and additions to the file contributed by third parties
 # remain the property of their copyright owners, unless otherwise agreed
@@ -20,8 +20,9 @@
 # Tests require a network connection
 %bcond_with test
 %define skip_python2 1
+%define skip_python36 1
 Name:           python-biopython
-Version:        1.77
+Version:        1.78
 Release:        0
 Summary:        Python Tools for Computational Molecular Biology
 License:        MIT AND BSD-3-Clause
@@ -54,7 +55,6 @@ available Python tools for computational molecular biology.
 %prep
 %setup -q -n biopython-%{version}
 find -type f -name "*.py" -exec sed -i '/^#![ ]*\/usr\/bin\/.*$/ d' {} 2>/dev/null ';'
-sed -i '/^#![ ]*\/usr\/bin\/.*$/ d' Scripts/Structure/hsexpo
 # Example scripts cannot be in a subdirectory
 mv -v Doc/examples examples