Libraries that are a foundation of the Avogadro 2 project.
Avogadro 2 is a chemical editor and visualization application, it is also a set
of reusable software libraries written in C++ using principles of modularity for
maximum reuse. The development of the first generation Avogadro application and
library is documented in our paper, and this remains the preferred method of
citation at present. The motivation for rewriting Avogadro, along with
improvements and changes made in Avogadro 2 are summarized in our Source
article. We provide a set of permissively licensed, open source, cross platform
software components in the Avogadro 2 libraries, along with an end-user
application with full source code, and binaries.
The library features updated and improved rendering, where we built upon the
abstraction provided by previous API, but implemented a simple scene graph. This
makes use of features such as impostor sphere rendering, resulting in
significant rendering speed improvements while improving the quality of the
visualization. The core is built for scalability, looking to enable the analysis
of larger chemical structures and simulations being produced by computational
chemistry codes today. Emphasis has also been placed on making it even easier to
extend, using simple Python scripts to add simulation input capabilities, and
data input/output along with access to full-blown C++ plugin APIs where more
control is required.
===> The following configuration options are available for avogadrolibs-2.0.0_1:
HDF5=on: HDF-5 data format support
LIBARCHIVE=on: Enable optional Libarchive features
LIBMSYM=on: Enable optional features using libmsym
MMTF=on: Enable optional features using mmtf
OPENGL=on: 2D/3D rendering support via OpenGL
QT=on: Qt toolkit support
SPGLIB=on: Enable optional features using spglib
VTK=on: Enable libraries that use VTK
===> Use 'make config' to modify these settings
science/avogadrolibs: fix packaging (+)
Restore lost in last commit %%OPENGL%% macro
PlotPdf and PlotXrd Qt plugins now builds and installs without VTK, handle them
with %%QT%% macro
Bump PORTREVISION due to package content changed with QT option
Reported by: bulk -t
Approved by: portmgr blanket
Mk/Uses: always use colon for build/run suffix
Most USES use a colon for build/run(/test) suffixes. Change kde.mk,
qt.mk and pyqt.mk to do the same, and update all ports using that.
Document in CHANGES.
PR: 266034
Exp-run by: antoine
Approved by: tcberner (mentor)
Differential Revision: https://reviews.freebsd.org/D36349
Remove WWW entries moved into port Makefiles
Commit b7f05445c00f has added WWW entries to port Makefiles based on
WWW: lines in pkg-descr files.
This commit removes the WWW: lines of moved-over URLs from these
pkg-descr files.
Approved by: portmgr (tcberner)
Add WWW entries to port Makefiles
It has been common practice to have one or more URLs at the end of the
ports' pkg-descr files, one per line and prefixed with "WWW:". These
URLs should point at a project website or other relevant resources.
Access to these URLs required processing of the pkg-descr files, and
they have often become stale over time. If more than one such URL was
present in a pkg-descr file, only the first one was tarnsfered into
the port INDEX, but for many ports only the last line did contain the
port specific URL to further information.
There have been several proposals to make a project URL available as
a macro in the ports' Makefiles, over time.
(Only the first 15 lines of the commit message are shown above )
science/hdf5: bump PORTREVISION of consumers
The SO-version increased in the update to 1.12.2 in
a43418b81530f7e897abfbe18dd59f44265a1a0f .
Reported by: VVD <vvd@unislabs.com>
*/*: Replace science/szip with science/libaec
- Bump PORTREVISION of dependent ports for dependency change
szip does not allow redistribution in binary form without proper commercial
license. Its LICENSE_PERMS should be set to no-auto-accept which blocks building
this port, therefore building dependent ports are also blocked. Switch all
dependent ports to science/libaec to avoid conflicts and license issue.
PR: 228743, 246097, 250165
graphics/mesa-libs: Bump reverse deps for libglvnd
Per discussion with bapt on helping pkg handle the changing of these
deps and avoiding impossible upgrade senarios.
PR: 246767
Reviewed by: manu, bapt
Approved by: x11
Differential Revision: https://reviews.freebsd.org/D30824
- Upgrade math/eigen3 to 3.3.8;
- Add some dependencies which might be detected by Find_Package but not
registered;
- Bump PORTREVISION of consumers.
PR: 250833
Submitted by: /me
Approved by: tcberner@ (KDE / maintainer) + exp-run
math/vtk8: Update 8.1.2 -> 8.2.0
science/liggght is updated 3.8.0 -> 3.8.0-26 because only later revisions
support vtk8-8.2.0
3 dependent ports bumped.
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
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 )
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
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
