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Hello community,
here is the log from the commit of package python-pymol for openSUSE:Factory
checked in at 2023-08-18 19:29:26
++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
Comparing /work/SRC/openSUSE:Factory/python-pymol (Old)
and /work/SRC/openSUSE:Factory/.python-pymol.new.1766 (New)
++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
Package is "python-pymol"
Fri Aug 18 19:29:26 2023 rev:10 rq:1104685 version:2.5.0
Changes:
--------
--- /work/SRC/openSUSE:Factory/python-pymol/python-pymol.changes
2021-05-19 17:49:31.405498581 +0200
+++ /work/SRC/openSUSE:Factory/.python-pymol.new.1766/python-pymol.changes
2023-08-18 19:29:53.219480297 +0200
@@ -1,0 +2,44 @@
+Wed Aug 11 12:23:17 UTC 2023 - <hs...@mail.de>
+
+- update to 2.5.0
+ * File Import/Export
+ - DX binary map import (*dxbin)
+ - PDB/MMTF export: symmetry information now added
+ - Improved FASTA import
+ - Support for map.gz and mrc.gz extensions
+ * Builder & Panels
+ - Improved Fuse command (disallows hypervalent bonds,
+ substitute monovalent atoms instead of attaching to them)
+ - Customizable keyboard shortcut menu
+ - Properties inspector now supports unsetting settings with
+ âDeleteâ key
+ * Graphics & Visualization
+ - Ray interior colors now match primitives with
+ `set ray_interior_color, atomic`
+ - Isomesh transparency support
+ - `sphere_mode` 5 removed (9 as replacement)
+ - Curved cartoon cylindrical helices
+ - Isosurface generation via marching cubes with setting
+ `isosurface_algorithm, (0, 1)` (0 requires VTKm)
+ * PBC Handling
+ - Periodic boundary conditions supported in rebond, smooth,
+ and intra_fit
+ * Python API
+ - Python 2 support removed
+ - pbc argument added to rebond, smooth, and intra_fit
+ - png(None) returns bytes
+ - scene_order() allows list for `names`
+ - pbc_wrap() and pbc_unwrap added
+ - matrix_reset() supports `state=0` for all states
+ - editing_ring() added
+ - unset now restores the default value for global settings
+ - load_traj now uses state=1 by default
+ - get_area command and dots representation: Exclude
+ âflag ignoreâ atoms
+- no-o3.patch: adapt to 2.5.0
+- spec file:
+ * some tweaks to adapt to 2.5.0
+ * remove test related stuff; test run commands are removed
+ from 2.5.0 as unmaintained and useless
+
+-------------------------------------------------------------------
Old:
----
_service
pymol-open-source-2.4.0.tar.gz
pymol-testing-0.0+git.1613482680.a99b9c6.obscpio
pymol-testing.obsinfo
New:
----
pymol-open-source-2.5.0.tar.gz
++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++
Other differences:
------------------
++++++ python-pymol.spec ++++++
--- /var/tmp/diff_new_pack.8N3wx4/_old 2023-08-18 19:29:54.827483181 +0200
+++ /var/tmp/diff_new_pack.8N3wx4/_new 2023-08-18 19:29:54.895483303 +0200
@@ -16,21 +16,18 @@
#
-%bcond_with test
%{?!python_module:%define python_module() python-%{**} python3-%{**}}
-%define skip_python36 1
+%define skip_python2 1
%define oldpython python
%define modname pymol-open-source
-%define test_version 0.0+git.1613482680.a99b9c6
Name: python-pymol
-Version: 2.4.0
+Version: 2.5.0
Release: 0
Summary: A Molecular Viewer
License: Python-2.0
Group: Productivity/Scientific/Chemistry
URL: https://pymol.org/2/
Source0:
https://github.com/schrodinger/%{modname}/archive/v%{version}/%{modname}-%{version}.tar.gz
-Source1: pymol-testing-%{test_version}.tar.xz
# PATCH-FIX-OPENSUSE no-build-date.patch dh...@wustl.edu -- patch eliminates
build date
Patch0: no-build-date.patch
# PATCH-FIX-OPENSUSE no-o3.patch tchva...@suse.com -- do not add O3 to the code
@@ -40,24 +37,20 @@
BuildRequires: %{python_module pytest}
BuildRequires: %{python_module qt5-devel}
BuildRequires: %{python_module setuptools}
-BuildRequires: Catch2-devel
BuildRequires: fdupes
BuildRequires: freetype2-devel
BuildRequires: gcc-c++
BuildRequires: glew-devel
BuildRequires: glm-devel
-BuildRequires: libmsgpack-devel
+BuildRequires: msgpack-cxx-devel
BuildRequires: libpng-devel
BuildRequires: libxml2-devel
BuildRequires: mmtf-cpp-devel
BuildRequires: netcdf-devel
BuildRequires: python-rpm-macros
-# It needed itself for testing.
-%if %{with test}
-BuildRequires: %{python_module pymol}
-%endif
Requires: python-numpy
Requires: python-qt5
+Requires: python-pmw
Requires(post): update-alternatives
Requires(postun):update-alternatives
Obsoletes: pymol < %{version}
@@ -83,19 +76,9 @@
%prep
%setup -q -n %{modname}-%{version}
%autopatch -p1
-sed -i "1d" modules/pmg_tk/startup/apbs_tools.py # Remove she-bang line
-chmod -x test/cyg test/run test/show
-%if %{with test}
-# Unpack data for pymol-testing
-tar -xvf %{SOURCE1} -C %{_builddir}/%{modname}-%{version}
-# Use this to enable testing.
-sed -i 's/testing = False/testing = True/g' setup.py
-%endif
-
%build
export CXXFLAGS="%{optflags} -fno-strict-aliasing"
-# Use --testing to enable testing.
-%python_build %{?with_test:--testing}%{!?with_test:}
+%python_build
%install
%python_install
@@ -109,11 +92,6 @@
%python_uninstall_alternative pymol
%check
-# Use this to enable testing.
-# I think it use pymol itself to run test, I could not get pymol to run.
-%if %{with test}
-pymol -ckqy pymol-testing-%{test_version}/testing.py --run all
-%endif
%files %{python_files}
%doc README ChangeLog
++++++ no-o3.patch ++++++
--- /var/tmp/diff_new_pack.8N3wx4/_old 2023-08-18 19:29:55.227483898 +0200
+++ /var/tmp/diff_new_pack.8N3wx4/_new 2023-08-18 19:29:55.267483970 +0200
@@ -6,7 +6,7 @@
'-Wno-char-subscripts',
- # optimizations
- "-Og" if DEBUG else "-O3",
- ]
+ ] if not WIN else []
ext_link_args = []
ext_objects = []
++++++ pymol-open-source-2.4.0.tar.gz -> pymol-open-source-2.5.0.tar.gz ++++++
/work/SRC/openSUSE:Factory/python-pymol/pymol-open-source-2.4.0.tar.gz
/work/SRC/openSUSE:Factory/.python-pymol.new.1766/pymol-open-source-2.5.0.tar.gz
differ: char 12, line 1
