Date: Tue, 20 Mar 2018 07:53:14 +0000 (UTC) From: Yuri Victorovich <yuri@FreeBSD.org> To: ports-committers@freebsd.org, svn-ports-all@freebsd.org, svn-ports-head@freebsd.org Subject: svn commit: r465071 - head/science/py-pymol Message-ID: <201803200753.w2K7rEei059018@repo.freebsd.org>
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Author: yuri Date: Tue Mar 20 07:53:14 2018 New Revision: 465071 URL: https://svnweb.freebsd.org/changeset/ports/465071 Log: science/py-pymol: Update to 2.1.0 Release notes: https://pymol.org/dokuwiki/?id=media:new21 Port changes: * Fixed shebang in bin/pymol * Misc minor changes Reported by: portscout Modified: head/science/py-pymol/Makefile head/science/py-pymol/distinfo head/science/py-pymol/pkg-plist Modified: head/science/py-pymol/Makefile ============================================================================== --- head/science/py-pymol/Makefile Tue Mar 20 06:39:08 2018 (r465070) +++ head/science/py-pymol/Makefile Tue Mar 20 07:53:14 2018 (r465071) @@ -3,9 +3,9 @@ PORTNAME= pymol DISTVERSIONPREFIX= v -DISTVERSION= 1.8.6.0 +DISTVERSION= 2.1.0 CATEGORIES= science biology python -MASTER_SITES= SF/pymol/pymol/1.8/ +MASTER_SITES= SF/pymol/pymol/2/ PKGNAMEPREFIX= ${PYTHON_PKGNAMEPREFIX} MAINTAINER= yuri@FreeBSD.org @@ -22,15 +22,16 @@ LIB_DEPENDS= libfreetype.so:print/freetype2 \ libpng.so:graphics/png \ libmsgpackc.so:devel/msgpack -WRKSRC= ${WRKDIR}/pymol - USES= compiler:c++11-lang python:2.7 shebangfix tar:bz2 USE_GL= gl glew glu glut USE_GNOME= libxml2 -USE_PYTHON= distutils concurrent # autoplist is broken: https://sourceforge.net/p/pymol/bugs/189 +USE_PYTHON= distutils concurrent # autoplist is broken: https://sourceforge.net/p/pymol/bugs/189 SHEBANG_FILES= test/show test/run test/cyg +WRKSRC= ${WRKDIR}/pymol + post-install: + @${REINPLACE_CMD} -i '' -e 's|#!/bin/bash|#!/bin/sh|' ${STAGEDIR}${PREFIX}/bin/pymol @${STRIP_CMD} ${STAGEDIR}${PYTHONPREFIX_SITELIBDIR}/pymol/_cmd.so @${STRIP_CMD} ${STAGEDIR}${PYTHONPREFIX_SITELIBDIR}/chempy/champ/_champ.so Modified: head/science/py-pymol/distinfo ============================================================================== --- head/science/py-pymol/distinfo Tue Mar 20 06:39:08 2018 (r465070) +++ head/science/py-pymol/distinfo Tue Mar 20 07:53:14 2018 (r465071) @@ -1,3 +1,3 @@ -TIMESTAMP = 1509591135 -SHA256 (pymol-v1.8.6.0.tar.bz2) = 7eaaf90ac1e1be0969291cdb1154b3631b5b6403cce1d697133d90cd37a3c565 -SIZE (pymol-v1.8.6.0.tar.bz2) = 8717164 +TIMESTAMP = 1521529763 +SHA256 (pymol-v2.1.0.tar.bz2) = 7ae8ebb899533d691a67c1ec731b00518dea456ab3e258aa052a65c24b63eae2 +SIZE (pymol-v2.1.0.tar.bz2) = 8779083 Modified: head/science/py-pymol/pkg-plist ============================================================================== --- head/science/py-pymol/pkg-plist Tue Mar 20 06:39:08 2018 (r465070) +++ head/science/py-pymol/pkg-plist Tue Mar 20 07:53:14 2018 (r465071) @@ -168,6 +168,72 @@ bin/pymol %%PYTHON_SITELIBDIR%%/chempy/xyz.py %%PYTHON_SITELIBDIR%%/chempy/xyz.pyc %%PYTHON_SITELIBDIR%%/chempy/xyz.pyo +%%PYTHON_SITELIBDIR%%/pmg_qt/TextEditor.py +%%PYTHON_SITELIBDIR%%/pmg_qt/TextEditor.pyc +%%PYTHON_SITELIBDIR%%/pmg_qt/TextEditor.pyo +%%PYTHON_SITELIBDIR%%/pmg_qt/__init__.py +%%PYTHON_SITELIBDIR%%/pmg_qt/__init__.pyc +%%PYTHON_SITELIBDIR%%/pmg_qt/__init__.pyo +%%PYTHON_SITELIBDIR%%/pmg_qt/advanced_settings_gui.py +%%PYTHON_SITELIBDIR%%/pmg_qt/advanced_settings_gui.pyc +%%PYTHON_SITELIBDIR%%/pmg_qt/advanced_settings_gui.pyo +%%PYTHON_SITELIBDIR%%/pmg_qt/builder.py +%%PYTHON_SITELIBDIR%%/pmg_qt/builder.pyc +%%PYTHON_SITELIBDIR%%/pmg_qt/builder.pyo +%%PYTHON_SITELIBDIR%%/pmg_qt/file_dialogs.py +%%PYTHON_SITELIBDIR%%/pmg_qt/file_dialogs.pyc +%%PYTHON_SITELIBDIR%%/pmg_qt/file_dialogs.pyo +%%PYTHON_SITELIBDIR%%/pmg_qt/forms/__init__.py +%%PYTHON_SITELIBDIR%%/pmg_qt/forms/__init__.pyc +%%PYTHON_SITELIBDIR%%/pmg_qt/forms/__init__.pyo +%%PYTHON_SITELIBDIR%%/pmg_qt/forms/askpartial.ui +%%PYTHON_SITELIBDIR%%/pmg_qt/forms/colors.ui +%%PYTHON_SITELIBDIR%%/pmg_qt/forms/fetch.ui +%%PYTHON_SITELIBDIR%%/pmg_qt/forms/load_mae.ui +%%PYTHON_SITELIBDIR%%/pmg_qt/forms/load_map.ui +%%PYTHON_SITELIBDIR%%/pmg_qt/forms/load_mtz.ui +%%PYTHON_SITELIBDIR%%/pmg_qt/forms/load_traj.ui +%%PYTHON_SITELIBDIR%%/pmg_qt/forms/movieexport.ui +%%PYTHON_SITELIBDIR%%/pmg_qt/forms/pluginitem.ui +%%PYTHON_SITELIBDIR%%/pmg_qt/forms/pluginmanager.ui +%%PYTHON_SITELIBDIR%%/pmg_qt/forms/png.ui +%%PYTHON_SITELIBDIR%%/pmg_qt/forms/props.ui +%%PYTHON_SITELIBDIR%%/pmg_qt/forms/render.ui +%%PYTHON_SITELIBDIR%%/pmg_qt/forms/save_molecule.ui +%%PYTHON_SITELIBDIR%%/pmg_qt/forms/save_object.ui +%%PYTHON_SITELIBDIR%%/pmg_qt/keymapping.py +%%PYTHON_SITELIBDIR%%/pmg_qt/keymapping.pyc +%%PYTHON_SITELIBDIR%%/pmg_qt/keymapping.pyo +%%PYTHON_SITELIBDIR%%/pmg_qt/mimic_pmg_tk.py +%%PYTHON_SITELIBDIR%%/pmg_qt/mimic_pmg_tk.pyc +%%PYTHON_SITELIBDIR%%/pmg_qt/mimic_pmg_tk.pyo +%%PYTHON_SITELIBDIR%%/pmg_qt/mimic_tk.py +%%PYTHON_SITELIBDIR%%/pmg_qt/mimic_tk.pyc +%%PYTHON_SITELIBDIR%%/pmg_qt/mimic_tk.pyo +%%PYTHON_SITELIBDIR%%/pmg_qt/properties_dialog.py +%%PYTHON_SITELIBDIR%%/pmg_qt/properties_dialog.pyc +%%PYTHON_SITELIBDIR%%/pmg_qt/properties_dialog.pyo +%%PYTHON_SITELIBDIR%%/pmg_qt/pymol_gl_widget.py +%%PYTHON_SITELIBDIR%%/pmg_qt/pymol_gl_widget.pyc +%%PYTHON_SITELIBDIR%%/pmg_qt/pymol_gl_widget.pyo +%%PYTHON_SITELIBDIR%%/pmg_qt/pymol_qt_gui.py +%%PYTHON_SITELIBDIR%%/pmg_qt/pymol_qt_gui.pyc +%%PYTHON_SITELIBDIR%%/pmg_qt/pymol_qt_gui.pyo +%%PYTHON_SITELIBDIR%%/pmg_qt/syntax/__init__.py +%%PYTHON_SITELIBDIR%%/pmg_qt/syntax/__init__.pyc +%%PYTHON_SITELIBDIR%%/pmg_qt/syntax/__init__.pyo +%%PYTHON_SITELIBDIR%%/pmg_qt/syntax/pml.py +%%PYTHON_SITELIBDIR%%/pmg_qt/syntax/pml.pyc +%%PYTHON_SITELIBDIR%%/pmg_qt/syntax/pml.pyo +%%PYTHON_SITELIBDIR%%/pmg_qt/syntax/pmlparser.py +%%PYTHON_SITELIBDIR%%/pmg_qt/syntax/pmlparser.pyc +%%PYTHON_SITELIBDIR%%/pmg_qt/syntax/pmlparser.pyo +%%PYTHON_SITELIBDIR%%/pmg_qt/syntax/python.py +%%PYTHON_SITELIBDIR%%/pmg_qt/syntax/python.pyc +%%PYTHON_SITELIBDIR%%/pmg_qt/syntax/python.pyo +%%PYTHON_SITELIBDIR%%/pmg_qt/volume.py +%%PYTHON_SITELIBDIR%%/pmg_qt/volume.pyc +%%PYTHON_SITELIBDIR%%/pmg_qt/volume.pyo %%PYTHON_SITELIBDIR%%/pmg_tk/ColorEditor.py %%PYTHON_SITELIBDIR%%/pmg_tk/ColorEditor.pyc %%PYTHON_SITELIBDIR%%/pmg_tk/ColorEditor.pyo @@ -219,9 +285,12 @@ bin/pymol %%PYTHON_SITELIBDIR%%/pmg_tk/volume.py %%PYTHON_SITELIBDIR%%/pmg_tk/volume.pyc %%PYTHON_SITELIBDIR%%/pmg_tk/volume.pyo -%%PYTHON_SITELIBDIR%%/pmg_wx/__init__.py -%%PYTHON_SITELIBDIR%%/pmg_wx/__init__.pyc -%%PYTHON_SITELIBDIR%%/pmg_wx/__init__.pyo +%%PYTHON_SITELIBDIR%%/pymol/Qt/__init__.py +%%PYTHON_SITELIBDIR%%/pymol/Qt/__init__.pyc +%%PYTHON_SITELIBDIR%%/pymol/Qt/__init__.pyo +%%PYTHON_SITELIBDIR%%/pymol/Qt/utils.py +%%PYTHON_SITELIBDIR%%/pymol/Qt/utils.pyc +%%PYTHON_SITELIBDIR%%/pymol/Qt/utils.pyo %%PYTHON_SITELIBDIR%%/pymol/__init__.py %%PYTHON_SITELIBDIR%%/pymol/__init__.pyc %%PYTHON_SITELIBDIR%%/pymol/__init__.pyo @@ -229,6 +298,9 @@ bin/pymol %%PYTHON_SITELIBDIR%%/pymol/__main__.pyc %%PYTHON_SITELIBDIR%%/pymol/__main__.pyo %%PYTHON_SITELIBDIR%%/pymol/_cmd.so +%%PYTHON_SITELIBDIR%%/pymol/_gui.py +%%PYTHON_SITELIBDIR%%/pymol/_gui.pyc +%%PYTHON_SITELIBDIR%%/pymol/_gui.pyo %%PYTHON_SITELIBDIR%%/pymol/api.py %%PYTHON_SITELIBDIR%%/pymol/api.pyc %%PYTHON_SITELIBDIR%%/pymol/api.pyo @@ -244,6 +316,9 @@ bin/pymol %%PYTHON_SITELIBDIR%%/pymol/cmd.py %%PYTHON_SITELIBDIR%%/pymol/cmd.pyc %%PYTHON_SITELIBDIR%%/pymol/cmd.pyo +%%PYTHON_SITELIBDIR%%/pymol/colorprinting.py +%%PYTHON_SITELIBDIR%%/pymol/colorprinting.pyc +%%PYTHON_SITELIBDIR%%/pymol/colorprinting.pyo %%PYTHON_SITELIBDIR%%/pymol/colorramping.py %%PYTHON_SITELIBDIR%%/pymol/colorramping.pyc %%PYTHON_SITELIBDIR%%/pymol/colorramping.pyo @@ -271,6 +346,9 @@ bin/pymol %%PYTHON_SITELIBDIR%%/pymol/creating.py %%PYTHON_SITELIBDIR%%/pymol/creating.pyc %%PYTHON_SITELIBDIR%%/pymol/creating.pyo +%%PYTHON_SITELIBDIR%%/pymol/diagnosing.py +%%PYTHON_SITELIBDIR%%/pymol/diagnosing.pyc +%%PYTHON_SITELIBDIR%%/pymol/diagnosing.pyo %%PYTHON_SITELIBDIR%%/pymol/editing.py %%PYTHON_SITELIBDIR%%/pymol/editing.pyc %%PYTHON_SITELIBDIR%%/pymol/editing.pyo @@ -325,6 +403,9 @@ bin/pymol %%PYTHON_SITELIBDIR%%/pymol/keywords.py %%PYTHON_SITELIBDIR%%/pymol/keywords.pyc %%PYTHON_SITELIBDIR%%/pymol/keywords.pyo +%%PYTHON_SITELIBDIR%%/pymol/lazyio.py +%%PYTHON_SITELIBDIR%%/pymol/lazyio.pyc +%%PYTHON_SITELIBDIR%%/pymol/lazyio.pyo %%PYTHON_SITELIBDIR%%/pymol/locking.py %%PYTHON_SITELIBDIR%%/pymol/locking.pyc %%PYTHON_SITELIBDIR%%/pymol/locking.pyo @@ -376,6 +457,9 @@ bin/pymol %%PYTHON_SITELIBDIR%%/pymol/plugins/managergui.py %%PYTHON_SITELIBDIR%%/pymol/plugins/managergui.pyc %%PYTHON_SITELIBDIR%%/pymol/plugins/managergui.pyo +%%PYTHON_SITELIBDIR%%/pymol/plugins/managergui_qt.py +%%PYTHON_SITELIBDIR%%/pymol/plugins/managergui_qt.pyc +%%PYTHON_SITELIBDIR%%/pymol/plugins/managergui_qt.pyo %%PYTHON_SITELIBDIR%%/pymol/plugins/repository.py %%PYTHON_SITELIBDIR%%/pymol/plugins/repository.pyc %%PYTHON_SITELIBDIR%%/pymol/plugins/repository.pyo @@ -523,6 +607,8 @@ bin/pymol %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/demo/il2.pdb %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/demo/pept.pdb %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/demo/pept.pkl +%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_qt/icons/refresh.svg +%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_qt/styles/pymol.sty %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro5.gif %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro5.xbm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_tk/bitmaps/builder/aro6.gif @@ -545,6 +631,7 @@ bin/pymol %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pmg_tk/bitmaps/builder/cyc7.xbm %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pymol/cmyk.png %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pymol/hsv.ppm +%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pymol/icons/icon2.svg %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pymol/matrices/BLOSUM62 %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/pymol/splash.png %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/shaders/anaglyph.fs @@ -582,6 +669,9 @@ bin/pymol %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/shaders/spheredirect.vs %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/shaders/volume.fs %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/shaders/volume.vs +%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/startup/README.txt +%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/startup/lightingsettings_gui/__init__.py +%%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/startup/lightingsettings_gui/main.py %%PYTHON_SITELIBDIR%%/pymol/pymol_path/data/tut/1hpv.pdb %%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/chempy/generate_amber.py %%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/chempy/generate_mmff.py @@ -651,18 +741,6 @@ bin/pymol %%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/launching/launch_no_tk.py %%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/launching/launch_viewer1.py %%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/launching/launch_viewer2.py -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/package/redhat/pymol-0.93-1.rh62.py152.spec -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/package/redhat/pymol-0.93-1.rh70.py152.spec -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/package/redhat/pymol-0.93-1.rh72.py21.spec -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/package/redhat/pymol-0.93-1.rh73.py22.spec -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/package/redhat/pymol-0.93-1.rh80.py22.spec -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/package/redhat/pymol-0.93-1.rh90.py22.spec -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/package/redhat/pymol-0.96-1.rh62.py152.spec -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/package/redhat/pymol-0.96-1.rh70.py152.spec -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/package/redhat/pymol-0.96-1.rh72.py21.spec -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/package/redhat/pymol-0.96-1.rh73.py22.spec -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/package/redhat/pymol-0.96-1.rh80.py22.spec -%%PYTHON_SITELIBDIR%%/pymol/pymol_path/examples/package/redhat/pymol-0.96-1.rh90.py22.spec %%PYTHON_SITELIBDIR%%/pymol/pymol_path/scripts/metaphorics/alignment.pml %%PYTHON_SITELIBDIR%%/pymol/pymol_path/scripts/metaphorics/annotate.pml %%PYTHON_SITELIBDIR%%/pymol/pymol_path/scripts/metaphorics/fedora.pml @@ -871,6 +949,9 @@ bin/pymol %%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/trim.py %%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/vdiff %%PYTHON_SITELIBDIR%%/pymol/pymol_path/test/win.py +%%PYTHON_SITELIBDIR%%/pymol/pymolhttpd.py +%%PYTHON_SITELIBDIR%%/pymol/pymolhttpd.pyc +%%PYTHON_SITELIBDIR%%/pymol/pymolhttpd.pyo %%PYTHON_SITELIBDIR%%/pymol/querying.py %%PYTHON_SITELIBDIR%%/pymol/querying.pyc %%PYTHON_SITELIBDIR%%/pymol/querying.pyo @@ -988,15 +1069,3 @@ bin/pymol %%PYTHON_SITELIBDIR%%/pymol2/cmd2.py %%PYTHON_SITELIBDIR%%/pymol2/cmd2.pyc %%PYTHON_SITELIBDIR%%/pymol2/cmd2.pyo -%%PYTHON_SITELIBDIR%%/web/__init__.py -%%PYTHON_SITELIBDIR%%/web/__init__.pyc -%%PYTHON_SITELIBDIR%%/web/__init__.pyo -%%PYTHON_SITELIBDIR%%/web/examples/__init__.py -%%PYTHON_SITELIBDIR%%/web/examples/__init__.pyc -%%PYTHON_SITELIBDIR%%/web/examples/__init__.pyo -%%PYTHON_SITELIBDIR%%/web/examples/justhttpd.py -%%PYTHON_SITELIBDIR%%/web/examples/justhttpd.pyc -%%PYTHON_SITELIBDIR%%/web/examples/justhttpd.pyo -%%PYTHON_SITELIBDIR%%/web/pymolhttpd.py -%%PYTHON_SITELIBDIR%%/web/pymolhttpd.pyc -%%PYTHON_SITELIBDIR%%/web/pymolhttpd.pyo
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