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Port details
avogadrolibs Avogadro2 libraries for chemical editor and visualization applications
1.92.1_1 science on this many watch lists=0 search for ports that depend on this port Find issues related to this port Report an issue related to this port 1.92.1Version of this port present on the latest quarterly branch.
Maintainer: yuri@FreeBSD.org search for ports maintained by this maintainer
Port Added: 2018-10-17 01:02:48
Last Update: 2019-07-26 21:46:57
SVN Revision: 507372
License: GPLv2
Description:
SVNWeb : Homepage
pkg-plist: as obtained via: make generate-plist
Expand this list (220 items)
  1. /usr/local/share/licenses/avogadrolibs-1.92.1_1/catalog.mk
  2. /usr/local/share/licenses/avogadrolibs-1.92.1_1/LICENSE
  3. /usr/local/share/licenses/avogadrolibs-1.92.1_1/GPLv2
  4. include/avogadro/core/array.h
  5. include/avogadro/core/atom.h
  6. include/avogadro/core/atomtyper-inline.h
  7. include/avogadro/core/atomtyper.h
  8. include/avogadro/core/avogadrocore.h
  9. include/avogadro/core/avogadrocoreexport.h
  10. include/avogadro/core/avospglib.h
  11. include/avogadro/core/basisset.h
  12. include/avogadro/core/bond.h
  13. include/avogadro/core/color3f.h
  14. include/avogadro/core/coordinateblockgenerator.h
  15. include/avogadro/core/coordinateset.h
  16. include/avogadro/core/crystaltools.h
  17. include/avogadro/core/cube.h
  18. include/avogadro/core/elements.h
  19. include/avogadro/core/gaussianset.h
  20. include/avogadro/core/gaussiansettools.h
  21. include/avogadro/core/graph.h
  22. include/avogadro/core/matrix.h
  23. include/avogadro/core/mesh.h
  24. include/avogadro/core/molecule.h
  25. include/avogadro/core/mutex.h
  26. include/avogadro/core/nameatomtyper.h
  27. include/avogadro/core/residue.h
  28. include/avogadro/core/ringperceiver.h
  29. include/avogadro/core/slaterset.h
  30. include/avogadro/core/slatersettools.h
  31. include/avogadro/core/spacegroups.h
  32. include/avogadro/core/symbolatomtyper.h
  33. include/avogadro/core/types.h
  34. include/avogadro/core/unitcell.h
  35. include/avogadro/core/utilities.h
  36. include/avogadro/core/variant-inline.h
  37. include/avogadro/core/variant.h
  38. include/avogadro/core/variantmap.h
  39. include/avogadro/core/vector.h
  40. include/avogadro/core/version.h
  41. include/avogadro/io/avogadroioexport.h
  42. include/avogadro/io/cjsonformat.h
  43. include/avogadro/io/cmlformat.h
  44. include/avogadro/io/dcdformat.h
  45. include/avogadro/io/fileformat.h
  46. include/avogadro/io/fileformatmanager.h
  47. include/avogadro/io/gromacsformat.h
  48. @comment include/avogadro/io/hdf5dataformat.h
  49. include/avogadro/io/lammpsformat.h
  50. include/avogadro/io/mdlformat.h
  51. include/avogadro/io/mmtfformat.h
  52. include/avogadro/io/pdbformat.h
  53. include/avogadro/io/trrformat.h
  54. include/avogadro/io/vaspformat.h
  55. include/avogadro/io/xyzformat.h
  56. include/avogadro/molequeue/avogadromolequeueexport.h
  57. include/avogadro/molequeue/batchjob.h
  58. include/avogadro/molequeue/inputgenerator.h
  59. include/avogadro/molequeue/inputgeneratordialog.h
  60. include/avogadro/molequeue/inputgeneratorwidget.h
  61. include/avogadro/molequeue/molequeuedialog.h
  62. include/avogadro/molequeue/molequeuemanager.h
  63. include/avogadro/molequeue/molequeuequeuelistmodel.h
  64. include/avogadro/molequeue/molequeuewidget.h
  65. include/avogadro/qtgui/avogadroqtguiexport.h
  66. include/avogadro/qtgui/backgroundfileformat.h
  67. include/avogadro/qtgui/containerwidget.h
  68. include/avogadro/qtgui/customelementdialog.h
  69. include/avogadro/qtgui/elementtranslator.h
  70. include/avogadro/qtgui/extensionplugin.h
  71. include/avogadro/qtgui/filebrowsewidget.h
  72. include/avogadro/qtgui/fileformatdialog.h
  73. include/avogadro/qtgui/generichighlighter.h
  74. include/avogadro/qtgui/hydrogentools.h
  75. include/avogadro/qtgui/interfacescript.h
  76. include/avogadro/qtgui/interfacewidget.h
  77. include/avogadro/qtgui/meshgenerator.h
  78. include/avogadro/qtgui/molecule.h
  79. include/avogadro/qtgui/moleculemodel.h
  80. include/avogadro/qtgui/multiviewwidget.h
  81. include/avogadro/qtgui/periodictableview.h
  82. include/avogadro/qtgui/persistentatom.h
  83. include/avogadro/qtgui/persistentbond.h
  84. include/avogadro/qtgui/pythonscript.h
  85. include/avogadro/qtgui/rwmolecule.h
  86. include/avogadro/qtgui/sceneplugin.h
  87. include/avogadro/qtgui/scenepluginmodel.h
  88. include/avogadro/qtgui/scriptloader.h
  89. include/avogadro/qtgui/toolplugin.h
  90. include/avogadro/qtgui/utilities.h
  91. include/avogadro/qtgui/viewfactory.h
  92. include/avogadro/qtopengl/activeobjects.h
  93. include/avogadro/qtopengl/avogadroqtopenglexport.h
  94. include/avogadro/qtopengl/glwidget.h
  95. include/avogadro/qtopengl/qttextrenderstrategy.h
  96. include/avogadro/qtplugins/avogadroqtpluginsexport.h
  97. include/avogadro/qtplugins/avogadrostaticqtplugins.h
  98. include/avogadro/qtplugins/pluginfactory.h
  99. include/avogadro/qtplugins/pluginmanager.h
  100. include/avogadro/quantumio/avogadroquantumioexport.h
  101. include/avogadro/quantumio/gamessus.h
  102. include/avogadro/quantumio/gaussiancube.h
  103. include/avogadro/quantumio/gaussianfchk.h
  104. include/avogadro/quantumio/molden.h
  105. include/avogadro/quantumio/mopacaux.h
  106. include/avogadro/quantumio/nwchemjson.h
  107. include/avogadro/quantumio/nwchemlog.h
  108. include/avogadro/rendering/arrowgeometry.h
  109. include/avogadro/rendering/avogadrogl.h
  110. include/avogadro/rendering/avogadrorendering.h
  111. include/avogadro/rendering/avogadrorenderingexport.h
  112. include/avogadro/rendering/bufferobject.h
  113. include/avogadro/rendering/camera.h
  114. include/avogadro/rendering/cylindergeometry.h
  115. include/avogadro/rendering/drawable.h
  116. include/avogadro/rendering/geometrynode.h
  117. include/avogadro/rendering/geometryvisitor.h
  118. include/avogadro/rendering/glrenderer.h
  119. include/avogadro/rendering/glrendervisitor.h
  120. include/avogadro/rendering/groupnode.h
  121. include/avogadro/rendering/linestripgeometry.h
  122. include/avogadro/rendering/meshgeometry.h
  123. include/avogadro/rendering/node.h
  124. include/avogadro/rendering/povrayvisitor.h
  125. include/avogadro/rendering/primitive.h
  126. include/avogadro/rendering/scene.h
  127. include/avogadro/rendering/shader.h
  128. include/avogadro/rendering/shaderprogram.h
  129. include/avogadro/rendering/spheregeometry.h
  130. include/avogadro/rendering/textlabel2d.h
  131. include/avogadro/rendering/textlabel3d.h
  132. include/avogadro/rendering/textlabelbase.h
  133. include/avogadro/rendering/textproperties.h
  134. include/avogadro/rendering/textrenderstrategy.h
  135. include/avogadro/rendering/texture2d.h
  136. include/avogadro/rendering/transformnode.h
  137. include/avogadro/rendering/visitor.h
  138. include/avogadro/rendering/volumegeometry.h
  139. include/avogadro/rendering/vrmlvisitor.h
  140. lib/avogadro2/scripts/commands/scale.py
  141. lib/avogadro2/scripts/formatScripts/cclibScript.py
  142. lib/avogadro2/scripts/formatScripts/zyx.py
  143. lib/avogadro2/staticplugins/BallStick.a
  144. lib/avogadro2/staticplugins/BondCentric.a
  145. lib/avogadro2/staticplugins/Bonding.a
  146. lib/avogadro2/staticplugins/CoordinateEditor.a
  147. lib/avogadro2/staticplugins/CopyPaste.a
  148. lib/avogadro2/staticplugins/Crystal.a
  149. lib/avogadro2/staticplugins/CrystalScene.a
  150. lib/avogadro2/staticplugins/CustomElements.a
  151. lib/avogadro2/staticplugins/Editor.a
  152. lib/avogadro2/staticplugins/Force.a
  153. lib/avogadro2/staticplugins/GamessInput.a
  154. lib/avogadro2/staticplugins/Hydrogens.a
  155. lib/avogadro2/staticplugins/ImportPQR.a
  156. lib/avogadro2/staticplugins/LammpsInput.a
  157. lib/avogadro2/staticplugins/Licorice.a
  158. lib/avogadro2/staticplugins/LineFormatInput.a
  159. lib/avogadro2/staticplugins/Manipulator.a
  160. lib/avogadro2/staticplugins/MeasureTool.a
  161. lib/avogadro2/staticplugins/Meshes.a
  162. lib/avogadro2/staticplugins/MolecularProperties.a
  163. lib/avogadro2/staticplugins/Navigator.a
  164. lib/avogadro2/staticplugins/NetworkDatabases.a
  165. lib/avogadro2/staticplugins/OpenBabel.a
  166. lib/avogadro2/staticplugins/OverlayAxes.a
  167. lib/avogadro2/staticplugins/POVRay.a
  168. lib/avogadro2/staticplugins/PlayerTool.a
  169. lib/avogadro2/staticplugins/PluginDownloader.a
  170. lib/avogadro2/staticplugins/QuantumInput.a
  171. lib/avogadro2/staticplugins/ScriptFileFormats.a
  172. lib/avogadro2/staticplugins/Select.a
  173. lib/avogadro2/staticplugins/Selection.a
  174. lib/avogadro2/staticplugins/SpaceGroup.a
  175. lib/avogadro2/staticplugins/Spectra.a
  176. lib/avogadro2/staticplugins/Surfaces.a
  177. lib/avogadro2/staticplugins/Symmetry.a
  178. lib/avogadro2/staticplugins/SymmetryScene.a
  179. lib/avogadro2/staticplugins/ThreeDMol.a
  180. lib/avogadro2/staticplugins/VRML.a
  181. lib/avogadro2/staticplugins/VanDerWaals.a
  182. lib/avogadro2/staticplugins/VanDerWaalsAO.a
  183. lib/avogadro2/staticplugins/Wireframe.a
  184. lib/avogadro2/staticplugins/apbs.a
  185. lib/avogadro2/staticplugins/commands.a
  186. lib/cmake/avogadrolibs/AvogadroLibsConfig.cmake
  187. lib/cmake/avogadrolibs/AvogadroLibsConfigVersion.cmake
  188. lib/cmake/avogadrolibs/AvogadroLibsTargets-release.cmake
  189. lib/cmake/avogadrolibs/AvogadroLibsTargets.cmake
  190. lib/cmake/avogadrolibs/FindEigen3.cmake
  191. lib/cmake/avogadrolibs/FindGLEW.cmake
  192. lib/cmake/avogadrolibs/FindLibArchive.cmake
  193. lib/cmake/avogadrolibs/Findlibmsym.cmake
  194. lib/libAvogadroCore.so
  195. lib/libAvogadroCore.so.1
  196. lib/libAvogadroCore.so.1.92.0
  197. lib/libAvogadroIO.so
  198. lib/libAvogadroIO.so.1
  199. lib/libAvogadroIO.so.1.92.0
  200. lib/libAvogadroMoleQueue.so
  201. lib/libAvogadroMoleQueue.so.1
  202. lib/libAvogadroMoleQueue.so.1.92.0
  203. lib/libAvogadroQtGui.so
  204. lib/libAvogadroQtGui.so.1
  205. lib/libAvogadroQtGui.so.1.92.0
  206. lib/libAvogadroQtOpenGL.so
  207. lib/libAvogadroQtOpenGL.so.1
  208. lib/libAvogadroQtOpenGL.so.1.92.0
  209. lib/libAvogadroQtPlugins.so
  210. lib/libAvogadroQtPlugins.so.1
  211. lib/libAvogadroQtPlugins.so.1.92.0
  212. lib/libAvogadroQuantumIO.so
  213. lib/libAvogadroQuantumIO.so.1
  214. lib/libAvogadroQuantumIO.so.1.92.0
  215. lib/libAvogadroRendering.so
  216. lib/libAvogadroRendering.so.1
  217. lib/libAvogadroRendering.so.1.92.0
  218. lib/liblibgwavi.a
  219. @postexec /usr/sbin/service ldconfig restart > /dev/null
  220. @postunexec /usr/sbin/service ldconfig restart > /dev/null
Collapse this list.
Dependency lines:
  • avogadrolibs>0:science/avogadrolibs
To install the port: cd /usr/ports/science/avogadrolibs/ && make install clean
To add the package: pkg install avogadrolibs
PKGNAME: avogadrolibs
Flavors: there is no flavor information for this port.
distinfo:

Dependencies
NOTE: FreshPorts displays only information on required and default dependencies. Optional dependencies are not covered.
Build dependencies:
  1. mmtf.hpp : science/mmtf-cpp
  2. cmake : devel/cmake
  3. ninja : devel/ninja
  4. eigen3.pc : math/eigen3
  5. xorgproto>=0 : x11/xorgproto
  6. xorgproto>=0 : x11/xorgproto
  7. moc : devel/qt5-buildtools
  8. qmake : devel/qt5-qmake
Runtime dependencies:
  1. eigen3.pc : math/eigen3
Library dependencies:
  1. libmsym.so : science/libmsym
  2. libMoleQueueClient.so : misc/molequeue
  3. libsymspg.so : science/spglib
  4. libarchive.so.13 : archivers/libarchive
  5. libGL.so : graphics/mesa-libs
  6. libGLEW.so : graphics/glew
  7. libGLU.so : graphics/libGLU
  8. libQt5Concurrent.so : devel/qt5-concurrent
  9. libQt5Core.so : devel/qt5-core
  10. libQt5Gui.so : x11-toolkits/qt5-gui
  11. libQt5Network.so : net/qt5-network
  12. libQt5Widgets.so : x11-toolkits/qt5-widgets
This port is required by:
for Libraries
  1. science/avogadro2
  2. science/kalzium
  3. science/py-avogadrolibs

Configuration Options

USES:

Master Sites:
  1. https://codeload.github.com/OpenChemistry/avogadrolibs/tar.gz/1.92.1?dummy=/

Number of commits found: 13

Commit History - (may be incomplete: see SVNWeb link above for full details)
DateByDescription
26 Jul 2019 20:46:57
Original commit files touched by this commit  1.92.1_1
Revision:507372
gerald search for other commits by this committer
Bump PORTREVISION for ports depending on the canonical version of GCC
as defined in Mk/bsd.default-versions.mk which has moved from GCC 8.3
to GCC 9.1 under most circumstances now after revision 507371.

This includes ports
 - with USE_GCC=yes or USE_GCC=any,
 - with USES=fortran,
 - using Mk/bsd.octave.mk which in turn features USES=fortran, and
 - with USES=compiler specifying openmp, nestedfct, c11, c++0x, c++11-lang,
   c++11-lib, c++14-lang, c++17-lang, or gcc-c++11-lib
plus, everything INDEX-11 shows with a dependency on lang/gcc9 now.

PR:		238330
11 May 2019 18:10:31
Original commit files touched by this commit  1.92.1
Revision:501276
yuri search for other commits by this committer
science/avogadrolibs: Update 1.92.0 -> 1.92.1
16 Feb 2019 08:02:02
Original commit files touched by this commit  1.92.0_5
Revision:493031
yuri search for other commits by this committer
Move: science/mmtf -> science/mmtf-cpp

Also update its COMMENT to be more descriptive
12 Feb 2019 06:18:06
Original commit files touched by this commit  1.92.0_5
Revision:492755
yuri search for other commits by this committer
science/mmtf: Update g20180730 -> 1.0.0

Bump science/avogadrolibs since it uses this headers-only library.
16 Jan 2019 11:13:45
Original commit files touched by this commit  1.92.0_4
Revision:490472
tijl search for other commits by this committer
Fix Qt5 symbol version scripts to put the catch-all clause first.  When
a symbol matches multiple clauses the last one takes precedence.  If the
catch-all is last it captures everything.  In the case of Qt5 libraries
this caused all symbols to have a Qt_5 label while some should have
Qt_5_PRIVATE_API.  This only affects lld because GNU ld always gives the
catch-all lowest priority.

Older versions of Qt5Webengine exported some memory allocation symbols from
the bundled Chromium.  Version 5.9 stopped exporting these [1] but the
symbols were kept as weak wrappers for the standard allocation functions to
maintain binary compatibility. [2][3]  The problem is that the call to the
standard function in these weak wrappers is only resolved to the standard
function if there's a call to this standard function in other parts of
Qt5Webengine, because only then is there a non-weak symbol that takes
precedence over the weak one.  If there's no such non-weak symbol the call
(Only the first 15 lines of the commit message are shown above View all of this commit message)
05 Jan 2019 22:46:54
Original commit files touched by this commit  1.92.0_3
Revision:489412
sunpoet search for other commits by this committer
Update science/hdf5 to 1.10.4

- Bump PORTREVISION of dependent ports for shlib change

Changes:	https://portal.hdfgroup.org/display/support/HDF5%201.10.4#releasenotes
PR:		233070
Submitted by:	wen
26 Dec 2018 09:06:35
Original commit files touched by this commit  1.92.0_2
Revision:488363
tcberner search for other commits by this committer
Update math/eigen3 to 3.3.7

- http://eigen.tuxfamily.org/index.php?title=ChangeLog#Eigen_3.3.6
- http://eigen.tuxfamily.org/index.php?title=ChangeLog#Eigen_3.3.7
25 Dec 2018 20:25:40
Original commit files touched by this commit  1.92.0_1
Revision:488341
tcberner search for other commits by this committer
Change cmake default behaviour to outsource.

Ports that build out of source now simply can use "USES=cmake"
instead of "USES=cmake:outsource". Ports that fail to build
out of source now need to specify "USES=cmake:insource".

I tried to only set insource where explictely needed.

PR:		232038
Exp-run by:	antoine
12 Dec 2018 01:35:36
Original commit files touched by this commit  1.92.0_1
Revision:487272
gerald search for other commits by this committer
Bump PORTREVISION for ports depending on the canonical version of GCC
defined via Mk/bsd.default-versions.mk which has moved from GCC 7.4 t
GCC 8.2 under most circumstances.

This includes ports
 - with USE_GCC=yes or USE_GCC=any,
 - with USES=fortran,
 - using Mk/bsd.octave.mk which in turn features USES=fortran, and
 - with USES=compiler specifying openmp, nestedfct, c11, c++0x, c++11-lang,
   c++11-lib, c++14-lang, c++17-lang, or gcc-c++11-lib
plus, as a double check, everything INDEX-11 showed depending on lang/gcc7.

PR:		231590
09 Nov 2018 06:25:39
Original commit files touched by this commit  1.92.0
Revision:484502
yuri search for other commits by this committer
science/avogadrolibs: Update 1.91.0-107 -> 1.92.0

Also add 2 pull requests that fix obvious problems.
18 Oct 2018 22:31:27
Original commit files touched by this commit  1.91.0.107
Revision:482387
yuri search for other commits by this committer
science/avogadrolibs: Update 1.91.0 -> 1.91.0-107

jsoncpp isn't used any more, mmtf is now used.
17 Oct 2018 07:04:19
Original commit files touched by this commit  1.91.0_1
Revision:482273
yuri search for other commits by this committer
science/avogadrolibs: Add options
17 Oct 2018 01:02:16
Original commit files touched by this commit  1.91.0
Revision:482265
yuri search for other commits by this committer
New port: science/avogadrolibs: Avogadro2 libraries for chemical editor and
visualization applications

Number of commits found: 13

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