Re: [kde-freebsd] avogadro update
Ajtim lum...@gmail.com writes: Avogadro 1.1.1_1 update on reeBSD 10.0-RELEASE (amd64) doesn't work: Compressing man pages (compress-man) === Installing for avogadro-1.1.1_1 === Checking if science/avogadro already installed === Registering installation for avogadro-1.1.1_1 pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/include/avogadro/pythonerror.h): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/include/avogadro/pythoninterpreter.h): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/include/avogadro/pythonscript.h): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/lib/avogadro/1_1/extensions/pythonterminal.so): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/lib/python2.7/site-packages/Avogadro.so): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/engineScripts/wireframe.py): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/extensionScripts/example.py): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/extensionScripts/): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/engineScripts/): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/): No such file or directory Please post the output of `make configure'. I suspect something went wrong with your boost updates and the Python dependencies are not being found by Avogadro. ___ freebsd-ports@freebsd.org mailing list http://lists.freebsd.org/mailman/listinfo/freebsd-ports To unsubscribe, send any mail to freebsd-ports-unsubscr...@freebsd.org
Re: avogadro update
Ajtim lum...@gmail.com writes: -- [4/5] Numpy Module Traceback (most recent call last): File string, line 1, in module File /usr/local/lib/python2.7/site-packages/numpy/__init__.py, line 137, in module import add_newdocs File /usr/local/lib/python2.7/site-packages/numpy/add_newdocs.py, line 9, in module from numpy.lib import add_newdoc File /usr/local/lib/python2.7/site-packages/numpy/lib/__init__.py, line 13, in module from polynomial import * File /usr/local/lib/python2.7/site-packages/numpy/lib/polynomial.py, line 17, in module from numpy.linalg import eigvals, lstsq, inv File /usr/local/lib/python2.7/site-packages/numpy/linalg/__init__.py, line 48, in module from linalg import * File /usr/local/lib/python2.7/site-packages/numpy/linalg/linalg.py, line 23, in module from numpy.linalg import lapack_lite ImportError: /usr/local/lib/libalapack.so.2: Undefined symbol cblas_zswap -- Numpy NOT found - Python support disabled. CMake Warning at CMakeLists.txt:277 (message): Not all python dependencies are found - Python support diabled There you go ^ Looks like you need to rebuild lapack, blas or something related to it (some numpy dependency at least). ___ freebsd-ports@freebsd.org mailing list http://lists.freebsd.org/mailman/listinfo/freebsd-ports To unsubscribe, send any mail to freebsd-ports-unsubscr...@freebsd.org
Re: avogadro update
Ajtim lum...@gmail.com writes: On Tuesday 11 February 2014 10:31:58 you wrote: Ajtim lum...@gmail.com writes: -- [4/5] Numpy Module Traceback (most recent call last): File string, line 1, in module File /usr/local/lib/python2.7/site-packages/numpy/__init__.py, line 137, in module import add_newdocs File /usr/local/lib/python2.7/site-packages/numpy/add_newdocs.py, line 9, in module from numpy.lib import add_newdoc File /usr/local/lib/python2.7/site-packages/numpy/lib/__init__.py, line 13, in module from polynomial import * File /usr/local/lib/python2.7/site-packages/numpy/lib/polynomial.py, line 17, in module from numpy.linalg import eigvals, lstsq, inv File /usr/local/lib/python2.7/site-packages/numpy/linalg/__init__.py, line 48, in module from linalg import * File /usr/local/lib/python2.7/site-packages/numpy/linalg/linalg.py, line 23, in module from numpy.linalg import lapack_lite ImportError: /usr/local/lib/libalapack.so.2: Undefined symbol cblas_zswap -- Numpy NOT found - Python support disabled. CMake Warning at CMakeLists.txt:277 (message): Not all python dependencies are found - Python support diabled There you go ^ Looks like you need to rebuild lapack, blas or something related to it (some numpy dependency at least). I did rebuild blas and lapack and the problem exist: lapack and blas were suggestions based on numpy's dependencies. Start by finding out which port installs libalapack.so and go from there. Some quick googling for libalapack already shows ports/176993, for example. ___ freebsd-ports@freebsd.org mailing list http://lists.freebsd.org/mailman/listinfo/freebsd-ports To unsubscribe, send any mail to freebsd-ports-unsubscr...@freebsd.org
Re: avogadro update
On Tuesday 11 February 2014 10:52:58 Raphael Kubo da Costa wrote: Ajtim lum...@gmail.com writes: On Tuesday 11 February 2014 10:31:58 you wrote: Ajtim lum...@gmail.com writes: -- [4/5] Numpy Module Traceback (most recent call last): File string, line 1, in module File /usr/local/lib/python2.7/site-packages/numpy/__init__.py, line 137, in module import add_newdocs File /usr/local/lib/python2.7/site-packages/numpy/add_newdocs.py, line 9, in module from numpy.lib import add_newdoc File /usr/local/lib/python2.7/site-packages/numpy/lib/__init__.py, line 13, in module from polynomial import * File /usr/local/lib/python2.7/site-packages/numpy/lib/polynomial.py, line 17, in module from numpy.linalg import eigvals, lstsq, inv File /usr/local/lib/python2.7/site-packages/numpy/linalg/__init__.py, line 48, in module from linalg import * File /usr/local/lib/python2.7/site-packages/numpy/linalg/linalg.py, line 23, in module from numpy.linalg import lapack_lite ImportError: /usr/local/lib/libalapack.so.2: Undefined symbol cblas_zswap -- Numpy NOT found - Python support disabled. CMake Warning at CMakeLists.txt:277 (message): Not all python dependencies are found - Python support diabled There you go ^ Looks like you need to rebuild lapack, blas or something related to it (some numpy dependency at least). I did rebuild blas and lapack and the problem exist: lapack and blas were suggestions based on numpy's dependencies. Start by finding out which port installs libalapack.so and go from there. Some quick googling for libalapack already shows ports/176993, for example. Thank you very much. I did reinstall py-numpy and py-mathplotlib and it works :). -- Mitja --- http://www.redbubble.com/people/lumiwa ___ freebsd-ports@freebsd.org mailing list http://lists.freebsd.org/mailman/listinfo/freebsd-ports To unsubscribe, send any mail to freebsd-ports-unsubscr...@freebsd.org
Re: [kde-freebsd] avogadro update
Alex V. Petrov alexvpet...@gmail.com writes: For me stop build: [ 10%] Building CXX object libavogadro/src/extensions/surfaces/openqube/CMakeFiles/OpenQube.dir/moc_gaussianset.cxx.o usr/local/include/boost/type_traits/detail/has_binary_operator.hp:50: Parse error at BOOST_JOIN --- libavogadro/src/moc_pythonengine_p.cxx --- *** [libavogadro/src/moc_pythonengine_p.cxx] Error code 1 make[4]: stopped in /usr/ports/science/avogadro/work/avogadro-1.1.1 1 error This one has been fixed by ports r343646. ___ freebsd-ports@freebsd.org mailing list http://lists.freebsd.org/mailman/listinfo/freebsd-ports To unsubscribe, send any mail to freebsd-ports-unsubscr...@freebsd.org
Re: [kde-freebsd] avogadro update
It work, after upgrade of qt4-moc to 4.8.5_1 2014-02-10 23:19 GMT+08:00 Raphael Kubo da Costa rak...@freebsd.org: Alex V. Petrov alexvpet...@gmail.com writes: For me stop build: [ 10%] Building CXX object libavogadro/src/extensions/surfaces/openqube/CMakeFiles/OpenQube.dir/moc_gaussianset.cxx.o usr/local/include/boost/type_traits/detail/has_binary_operator.hp:50: Parse error at BOOST_JOIN --- libavogadro/src/moc_pythonengine_p.cxx --- *** [libavogadro/src/moc_pythonengine_p.cxx] Error code 1 make[4]: stopped in /usr/ports/science/avogadro/work/avogadro-1.1.1 1 error This one has been fixed by ports r343646. -- -- Alex V. Petrov ___ freebsd-ports@freebsd.org mailing list http://lists.freebsd.org/mailman/listinfo/freebsd-ports To unsubscribe, send any mail to freebsd-ports-unsubscr...@freebsd.org
Re: [kde-freebsd] avogadro update
On Monday 10 February 2014 23:35:14 Alex V. Petrov wrote: It work, after upgrade of qt4-moc to 4.8.5_1 2014-02-10 23:19 GMT+08:00 Raphael Kubo da Costa rak...@freebsd.org: Alex V. Petrov alexvpet...@gmail.com writes: For me stop build: [ 10%] Building CXX object libavogadro/src/extensions/surfaces/openqube/CMakeFiles/OpenQube.dir/moc_gaussianset.cxx.o usr/local/include/boost/type_traits/detail/has_binary_operator.hp:50: Parse error at BOOST_JOIN --- libavogadro/src/moc_pythonengine_p.cxx --- *** [libavogadro/src/moc_pythonengine_p.cxx] Error code 1 make[4]: stopped in /usr/ports/science/avogadro/work/avogadro-1.1.1 1 error This one has been fixed by ports r343646. Lucky you :). On my FreeBSD 10.0-RELEASE (*amd64) I have the same problem and it works if I put NO_STAGE=yes in Makefile: Compressing man pages (compress-man) === Installing for avogadro-1.1.1_1 === Checking if science/avogadro already installed === Registering installation for avogadro-1.1.1_1 pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/include/avogadro/pythonerror.h): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/include/avogadro/pythoninterpreter.h): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/include/avogadro/pythonscript.h): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/lib/avogadro/1_1/extensions/pythonterminal.so): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/lib/python2.7/site-packages/Avogadro.so): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/engineScripts/wireframe.py): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/extensionScripts/example.py): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/extensionScripts/): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/engineScripts/): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/): No such file or directory *** Error code 74 Stop. make[1]: stopped in /usr/ports/science/avogadro *** Error code 1 Stop. make: stopped in /usr/ports/science/avogadro -- Mitja --- http://www.redbubble.com/people/lumiwa ___ freebsd-ports@freebsd.org mailing list http://lists.freebsd.org/mailman/listinfo/freebsd-ports To unsubscribe, send any mail to freebsd-ports-unsubscr...@freebsd.org
avogadro update
Hi! Avogadro 1.1.1_1 update on reeBSD 10.0-RELEASE (amd64) doesn't work: Compressing man pages (compress-man) === Installing for avogadro-1.1.1_1 === Checking if science/avogadro already installed === Registering installation for avogadro-1.1.1_1 pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/include/avogadro/pythonerror.h): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/include/avogadro/pythoninterpreter.h): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/include/avogadro/pythonscript.h): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/lib/avogadro/1_1/extensions/pythonterminal.so): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/lib/python2.7/site-packages/Avogadro.so): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/engineScripts/wireframe.py): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/extensionScripts/example.py): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/extensionScripts/): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/engineScripts/): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/): No such file or directory *** Error code 74 Stop. make[1]: stopped in /usr/ports/science/avogadro *** Error code 1 Stop. make: stopped in /usr/ports/science/avogadro root@lumiwa:~# rehash root@lumiwa:~# whereis avogadro avogadro: /usr/local/man/man1/avogadro.1 /usr/ports/science/avogadro Thank you. -- Mitja --- http://www.redbubble.com/people/lumiwa ___ freebsd-ports@freebsd.org mailing list http://lists.freebsd.org/mailman/listinfo/freebsd-ports To unsubscribe, send any mail to freebsd-ports-unsubscr...@freebsd.org
Re: avogadro update
For me stop build: [ 10%] Building CXX object libavogadro/src/extensions/surfaces/openqube/CMakeFiles/OpenQube.dir/moc_gaussianset.cxx.o usr/local/include/boost/type_traits/detail/has_binary_operator.hp:50: Parse error at BOOST_JOIN --- libavogadro/src/moc_pythonengine_p.cxx --- *** [libavogadro/src/moc_pythonengine_p.cxx] Error code 1 make[4]: stopped in /usr/ports/science/avogadro/work/avogadro-1.1.1 1 error 2014-02-08 19:27 GMT+08:00 Ajtim lum...@gmail.com: Hi! Avogadro 1.1.1_1 update on reeBSD 10.0-RELEASE (amd64) doesn't work: Compressing man pages (compress-man) === Installing for avogadro-1.1.1_1 === Checking if science/avogadro already installed === Registering installation for avogadro-1.1.1_1 pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/include/avogadro/pythonerror.h): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/include/avogadro/pythoninterpreter.h): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/include/avogadro/pythonscript.h): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/lib/avogadro/1_1/extensions/pythonterminal.so): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/lib/python2.7/site-packages/Avogadro.so): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/engineScripts/wireframe.py): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/extensionScripts/example.py): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/extensionScripts/): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/engineScripts/): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/): No such file or directory *** Error code 74 Stop. make[1]: stopped in /usr/ports/science/avogadro *** Error code 1 Stop. make: stopped in /usr/ports/science/avogadro root@lumiwa:~# rehash root@lumiwa:~# whereis avogadro avogadro: /usr/local/man/man1/avogadro.1 /usr/ports/science/avogadro Thank you. -- Mitja --- http://www.redbubble.com/people/lumiwa ___ freebsd-ports@freebsd.org mailing list http://lists.freebsd.org/mailman/listinfo/freebsd-ports To unsubscribe, send any mail to freebsd-ports-unsubscr...@freebsd.org -- -- Alex V. Petrov ___ freebsd-ports@freebsd.org mailing list http://lists.freebsd.org/mailman/listinfo/freebsd-ports To unsubscribe, send any mail to freebsd-ports-unsubscr...@freebsd.org
Re: avogadro update
On Saturday 08 February 2014 19:41:42 Alex V. Petrov wrote: For me stop build: [ 10%] Building CXX object libavogadro/src/extensions/surfaces/openqube/CMakeFiles/OpenQube.dir/moc_gaussianset.cxx.o usr/local/include/boost/type_traits/detail/has_binary_operator.hp:50: Parse error at BOOST_JOIN --- libavogadro/src/moc_pythonengine_p.cxx --- *** [libavogadro/src/moc_pythonengine_p.cxx] Error code 1 make[4]: stopped in /usr/ports/science/avogadro/work/avogadro-1.1.1 1 error 2014-02-08 19:27 GMT+08:00 Ajtim lum...@gmail.com: Hi! Avogadro 1.1.1_1 update on reeBSD 10.0-RELEASE (amd64) doesn't work: Compressing man pages (compress-man) === Installing for avogadro-1.1.1_1 === Checking if science/avogadro already installed === Registering installation for avogadro-1.1.1_1 pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/include/avogadro/pythonerror.h): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/include/avogadro/pythoninterpreter.h): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/include/avogadro/pythonscript.h): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/lib/avogadro/1_1/extensions/pythonterminal.so): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/lib/python2.7/site-packages/Avogadro.so): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/engineScripts/wireframe.py): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/extensionScripts/example.py): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/extensionScripts/): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/engineScripts/): No such file or directory pkg-static: lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/): No such file or directory *** Error code 74 Stop. make[1]: stopped in /usr/ports/science/avogadro *** Error code 1 Stop. make: stopped in /usr/ports/science/avogadro root@lumiwa:~# rehash root@lumiwa:~# whereis avogadro avogadro: /usr/local/man/man1/avogadro.1 /usr/ports/science/avogadro Thank you. -- Mitja --- http://www.redbubble.com/people/lumiwa ___ freebsd-ports@freebsd.org mailing list http://lists.freebsd.org/mailman/listinfo/freebsd-ports To unsubscribe, send any mail to freebsd-ports-unsubscr...@freebsd.org I add NO_STAGE=yes in /usr/ports/science/avogaro/Makefile and it installed port. -- Mitja --- http://www.redbubble.com/people/lumiwa ___ freebsd-ports@freebsd.org mailing list http://lists.freebsd.org/mailman/listinfo/freebsd-ports To unsubscribe, send any mail to freebsd-ports-unsubscr...@freebsd.org
Re: avogadro update
On Sat, Feb 08, 2014 at 05:45:51PM -0500, Ajtim wrote:
On Saturday 08 February 2014 19:41:42 Alex V. Petrov wrote:
For me stop build:
[ 10%] Building CXX object
libavogadro/src/extensions/surfaces/openqube/CMakeFiles/OpenQube.dir/moc_gaussianset.cxx.o
usr/local/include/boost/type_traits/detail/has_binary_operator.hp:50: Parse
error at BOOST_JOIN
--- libavogadro/src/moc_pythonengine_p.cxx ---
*** [libavogadro/src/moc_pythonengine_p.cxx] Error code 1
make[4]: stopped in /usr/ports/science/avogadro/work/avogadro-1.1.1
1 error
2014-02-08 19:27 GMT+08:00 Ajtim lum...@gmail.com:
Hi!
Avogadro 1.1.1_1 update on reeBSD 10.0-RELEASE (amd64) doesn't work:
Compressing man pages (compress-man)
=== Installing for avogadro-1.1.1_1
=== Checking if science/avogadro already installed
=== Registering installation for avogadro-1.1.1_1
pkg-static:
lstat(/usr/ports/science/avogadro/work/stage/usr/local/include/avogadro/pythonerror.h):
No such file or directory
pkg-static:
lstat(/usr/ports/science/avogadro/work/stage/usr/local/include/avogadro/pythoninterpreter.h):
No such file or directory
pkg-static:
lstat(/usr/ports/science/avogadro/work/stage/usr/local/include/avogadro/pythonscript.h):
No such file or directory
pkg-static:
lstat(/usr/ports/science/avogadro/work/stage/usr/local/lib/avogadro/1_1/extensions/pythonterminal.so):
No such file or directory
pkg-static:
lstat(/usr/ports/science/avogadro/work/stage/usr/local/lib/python2.7/site-packages/Avogadro.so):
No such file or directory
pkg-static:
lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/engineScripts/wireframe.py):
No such file or directory
pkg-static:
lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/extensionScripts/example.py):
No such file or directory
pkg-static:
lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/extensionScripts/):
No such file or directory
pkg-static:
lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/engineScripts/):
No such file or directory
pkg-static:
lstat(/usr/ports/science/avogadro/work/stage/usr/local/share/libavogadro/):
No such file or directory
*** Error code 74
Stop.
make[1]: stopped in /usr/ports/science/avogadro
*** Error code 1
Stop.
make: stopped in /usr/ports/science/avogadro
root@lumiwa:~# rehash
root@lumiwa:~# whereis avogadro
avogadro: /usr/local/man/man1/avogadro.1 /usr/ports/science/avogadro
Thank you.
--
Mitja
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I add NO_STAGE=yes in /usr/ports/science/avogaro/Makefile and it installed
port.
This is not a fix, this hides the problem.
regards,
Bapt
pgpL1iLctydrY.pgp
Description: PGP signature
Re: science/avogadro: patching failed
On May 15, 2013, at 1:17 PM, Rainer Hurling rhur...@gwdg.de wrote: after the newest patches from r318213 it seems, that the preceding patch r318197 is not necessary any more, so science/avogadro/files/patch-git_f518cdf4d281ac6da124b179a7f9b4b71ca90cb0 should be deleted. is fixed already just update the ports tree. Rainer Hurling ___ freebsd-ports@freebsd.org mailing list http://lists.freebsd.org/mailman/listinfo/freebsd-ports To unsubscribe, send any mail to freebsd-ports-unsubscr...@freebsd.org +-oOO--(_)--OOo-+ With best Regards, Martin Wilke (miwi_(at)_FreeBSD.org) Mess with the Best, Die like the Rest ___ freebsd-ports@freebsd.org mailing list http://lists.freebsd.org/mailman/listinfo/freebsd-ports To unsubscribe, send any mail to freebsd-ports-unsubscr...@freebsd.org
science/avogadro fails to build
FreeBSD-8.3 STABLE amd64 Evidently, the science/avogadro port does not have a full time maintainer. In that case, I will report the problem here. Basically, the port refused to build. It ends with this output: (it probably suffers severe line wrap distortion) cd /usr/ports/science/avogadro/work/avogadro-1.1.0/libavogadro/src/extensions/crystallography /usr/bin/c++ -DHAVE_GCC_VISIBILITY -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_OPENGL_LIB -DQT_PLUGIN -DQT_SHARED -D_BSD_SOURCE -Dcrystallographyextension_EXPORTS -O2 -pipe -march=athlon64 -idirafter /usr/local/include -fno-strict-aliasing -fvisibility=hidden -fvisibility-inlines-hidden -fpermissive -O2 -pipe -march=athlon64 -idirafter /usr/local/include -fno-strict-aliasing -fPIC -I/usr/ports/science/avogadro/work/avogadro-1.1.0/libavogadro/include -I/usr/local/include/qt4 -I/usr/local/include/qt4/QtOpenGL -I/usr/local/include/qt4/QtGui -I/usr/local/include/qt4/QtCore -I/usr/ports/science/avogadro/work/avogadro-1.1.0/libavogadro/src -I/usr/local/include/eigen2 -I/usr/local/include/openbabel-2.0 -I/usr/ports/science/avogadro/work/avogadro-1.1.0/libavogadro/src/extensions -I/usr/ports/science/avogadro/work/avogadro-1.1.0/libavogadro/src/extensions/gl2ps -I/usr/ports/science/avogadro/work/avogadro-1.1.0/libavogadro/src/extensions/crystallography -o CMakeFiles/crystallographyextension.dir/ui/moc_ceviewoptionswidget.cxx.o -c /usr/ports/science/avogadro/work/avogadro-1.1.0/libavogadro/src/extensions/crystallography/ui/moc_ceviewoptionswidget.cxx Linking CXX shared module ../../../../lib/crystallographyextension.so cd /usr/ports/science/avogadro/work/avogadro-1.1.0/libavogadro/src/extensions/crystallography /usr/local/bin/cmake -E cmake_link_script CMakeFiles/crystallographyextension.dir/link.txt --verbose=1 /usr/bin/c++ -fPIC -O2 -pipe -march=athlon64 -idirafter /usr/local/include -fno-strict-aliasing -fvisibility=hidden -fvisibility-inlines-hidden -fpermissive -O2 -pipe -march=athlon64 -idirafter /usr/local/include -fno-strict-aliasing -L/usr/local/lib -shared -Wl,-soname,crystallographyextension.so -o ../../../../lib/crystallographyextension.so CMakeFiles/crystallographyextension.dir/avospglib.cpp.o CMakeFiles/crystallographyextension.dir/ceundo.cpp.o CMakeFiles/crystallographyextension.dir/crystallographyextension.cpp.o CMakeFiles/crystallographyextension.dir/crystalpastedialog.cpp.o CMakeFiles/crystallographyextension.dir/ui/ceabstractdockwidget.cpp.o CMakeFiles/crystallographyextension.dir/ui/ceabstracteditor.cpp.o CMakeFiles/crystallographyextension.dir/ui/cecoordinateeditor.cpp.o CMakeFiles/crystallographyextension.dir/ui/cematrixeditor.cpp.o CMakeFiles/crystallographyextension.dir/ui/ceparametereditor.cpp.o CMakeFiles/crystallographyextension.dir/ui/ceslabbuilder.cpp.o CMakeFiles/crystallographyextension.dir/ui/cetranslatewidget.cpp.o CMakeFiles/crystallographyextension.dir/ui/ceviewoptionswidget.cpp.o CMakeFiles/crystallographyextension.dir/moc_crystallographyextension.cxx.o CMakeFiles/crystallographyextension.dir/moc_crystalpastedialog.cxx.o CMakeFiles/crystallographyextension.dir/ui/moc_ceabstractdockwidget.cxx.o CMakeFiles/crystallographyextension.dir/ui/moc_ceabstracteditor.cxx.o CMakeFiles/crystallographyextension.dir/ui/moc_cecoordinateeditor.cxx.o CMakeFiles/crystallographyextension.dir/ui/moc_cematrixeditor.cxx.o CMakeFiles/crystallographyextension.dir/ui/moc_ceparametereditor.cxx.o CMakeFiles/crystallographyextension.dir/ui/moc_ceslabbuilder.cxx.o CMakeFiles/crystallographyextension.dir/ui/moc_cetranslatewidget.cxx.o CMakeFiles/crystallographyextension.dir/ui/moc_ceviewoptionswidget.cxx.o -L/usr/local/lib ../../../../lib/libavogadro.so.1.1.0 /usr/local/lib/qt4/libQtCore.so /usr/local/lib/qt4/libQtGui.so -lopenbabel /usr/local/lib/libGLU.so /usr/local/lib/libGL.so /usr/local/lib/libSM.so /usr/local/lib/libICE.so /usr/local/lib/libX11.so /usr/local/lib/libXext.so spglib/libspglib.a -Wl,-rpath,/usr/ports/science/avogadro/work/avogadro-1.1.0/lib:/usr/local/lib:/usr/local/lib/qt4: /usr/bin/ld: spglib/libspglib.a(spglib.c.o): relocation R_X86_64_32 can not be used when making a shared object; recompile with -fPIC spglib/libspglib.a: could not read symbols: Bad value *** Error code 1 1 error *** Error code 2 /usr/local/bin/cmake -E cmake_progress_report /usr/ports/science/avogadro/work/avogadro-1.1.0/CMakeFiles [ 65%] Building CXX object libavogadro/src/extensions/spectra/CMakeFiles/spectraextension.dir/uv.cpp.o cd /usr/ports/science/avogadro/work/avogadro-1.1.0/libavogadro/src/extensions/spectra /usr/bin/c++ -DHAVE_GCC_VISIBILITY -DQT_CORE_LIB -DQT_GUI_LIB -DQT_NO_DEBUG -DQT_OPENGL_LIB -DQT_PLUGIN -DQT_SHARED -D_BSD_SOURCE -Dspectraextension_EXPORTS -O2 -pipe -march=athlon64 -idirafter /usr/local/include -fno-strict-aliasing -fvisibility=hidden -fvisibility-inlines-hidden -fpermissive -O2 -pipe -march=athlon64 -idirafter /usr/local/include -fno-strict-aliasing -fPIC -I/usr/ports/science/avogadro/work/avogadro-1.1.0/libavogadro
Re: science/avogadro fails to build
On Tue, 14 May 2013 23:11:13 +0300 Raphael Kubo da Costa articulated: Carmel carmel...@hotmail.com writes: FreeBSD-8.3 STABLE amd64 Evidently, the science/avogadro port does not have a full time maintainer. In that case, I will report the problem here. Basically, the port refused to build. It ends with this output: (it probably suffers severe line wrap distortion) I have probably fixed it in r318197, please svn up and give it a try. I don't know what you did, but it worked. I just installed the port. Thanks! -- Carmel ✌ carmel...@hotmail.com ___ freebsd-ports@freebsd.org mailing list http://lists.freebsd.org/mailman/listinfo/freebsd-ports To unsubscribe, send any mail to freebsd-ports-unsubscr...@freebsd.org
science/avogadro: patching failed
after the newest patches from r318213 it seems, that the preceding patch r318197 is not necessary any more, so science/avogadro/files/patch-git_f518cdf4d281ac6da124b179a7f9b4b71ca90cb0 should be deleted. Rainer Hurling ___ freebsd-ports@freebsd.org mailing list http://lists.freebsd.org/mailman/listinfo/freebsd-ports To unsubscribe, send any mail to freebsd-ports-unsubscr...@freebsd.org
avogadro
Continue building ports on FreeBSD 9.0 release with portmaster -r png- and sopped in science/avogadro: [60%} Generating moc_selectextension cxx usr/local/include/boost/type-traits/detail/has_binary_operator.hp.50: Parse error at BOOST_JOIN *** Error code 1 1 error *** Error code 2 make failed for science/avogadro Aborting update I rebuilt avogadro without PYTHON and it works but with python it doesn't works on my system. Thanks. ___ freebsd-ports@freebsd.org mailing list http://lists.freebsd.org/mailman/listinfo/freebsd-ports To unsubscribe, send any mail to freebsd-ports-unsubscr...@freebsd.org
A bad, bad, unhelpful response Re: avogadro
On Sun, 3 Jun 2012, Franci Nabalanci wrote: make failed for science/avogadro If you need help, I've got his number. -- Lars Eighner http://www.larseighner.com/index.html 8800 N IH35 APT 1191 AUSTIN TX 78753-5266 ___ freebsd-ports@freebsd.org mailing list http://lists.freebsd.org/mailman/listinfo/freebsd-ports To unsubscribe, send any mail to freebsd-ports-unsubscr...@freebsd.org
science/avogadro compile failure
avogadro fails with the error reports shown below. Thanks in advance for any guidance David Scanning dependencies of target avogadro-app [ 90%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/editcommands.cpp.o [ 90%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/projecttreeitem.cpp.o [ 90%] Building C object avogadro/src/CMakeFiles/avogadro- app.dir/__/gl2ps/gl2ps.c.o [ 91%] Building CXX object libavogadro/src/python/CMakeFiles/python- module.dir/moleculefile.cpp.o [ 91%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/projectdelegates/atomdelegate.cpp.o [ 91%] Building CXX object libavogadro/src/python/CMakeFiles/python- module.dir/toolgroup.cpp.o [ 91%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/projectdelegates/bonddelegate.cpp.o [ 92%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/projectdelegates/labeldelegate.cpp.o [ 92%] Building CXX object libavogadro/src/python/CMakeFiles/python- module.dir/pluginmanager.cpp.o [ 92%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/projectdelegates/moleculedelegate.cpp.o [ 92%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/projectdelegates/residuedelegate.cpp.o [ 92%] Building CXX object libavogadro/src/python/CMakeFiles/python- module.dir/cube.cpp.o [ 92%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/projectdelegates/selectiondelegate.cpp.o [ 92%] Building CXX object libavogadro/src/python/CMakeFiles/python- module.dir/atom.cpp.o [ 92%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/projecttreemodel.cpp.o [ 93%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/projecttreemodeldelegate.cpp.o [ 93%] Building CXX object libavogadro/src/python/CMakeFiles/python- module.dir/elementtranslator.cpp.o [ 93%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/pluginitemmodel.cpp.o [ 93%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/flattabwidget.cpp.o [ 93%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/engineitemdelegate.cpp.o [ 94%] Building CXX object libavogadro/src/python/CMakeFiles/python- module.dir/eigen.cpp.o [ 94%] Building CXX object libavogadro/src/python/CMakeFiles/python- module.dir/tool.cpp.o [ 94%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/engineitemmodel.cpp.o [ 94%] Building CXX object libavogadro/src/python/CMakeFiles/python- module.dir/periodictableview.cpp.o [ 94%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/engineviewwidget.cpp.o [ 94%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/primitiveitemmodel.cpp.o [ 94%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/aboutdialog.cpp.o [ 94%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/pluginlistview.cpp.o [ 94%] Building CXX object libavogadro/src/python/CMakeFiles/python- module.dir/primitivelist.cpp.o [ 94%] Building CXX object libavogadro/src/python/CMakeFiles/python- module.dir/camera.cpp.o [ 94%] Building CXX object libavogadro/src/python/CMakeFiles/python- module.dir/sip.cpp.o [ 95%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/detachedview.cpp.o [ 95%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/glgraphicsview.cpp.o /usr/ports/science/avogadro/work/avogadro-1.0.1/libavogadro/src/python/sip.cpp: In static member function 'static void* QClass_convertersT::QClass_from_PyQt(PyObject*)': /usr/ports/science/avogadro/work/avogadro-1.0.1/libavogadro/src/python/sip.cpp:207: error: 'struct sipSimpleWrapper' has no member named 'u' [ 95%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/enginelistview.cpp.o *** Error code 1 [ 95%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/primitivetreeview.cpp.o [ 95%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/enginecolorswidget.cpp.o [ 95%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/projecttreeeditor.cpp.o 1 error *** Error code 2 [ 95%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/application.cpp.o [ 95%] Building CXX object avogadro/src/CMakeFiles/avogadro-app.dir/main.cpp.o [ 95%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/savedialog.cpp.o [ 96%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/addenginedialog.cpp.o [ 96%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/pluginsettings.cpp.o [ 96%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/settingsdialog.cpp.o [ 97%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/engineprimitiveswidget.cpp.o [ 97%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/importdialog.cpp.o [ 98%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/mainwindow.cpp.o [ 98%] Building CXX object avogadro/src/CMakeFiles/avogadro- app.dir/qrc_avogadro.cxx.o Linking CXX executable ../../bin/avogadro [ 98%] Built target avogadro-app 1 error
