Dear All, after updating fink, I get the following error when updating apbs ... (pymol updated with no issues) Is there a solution to that ? Thanks a lot Jean-Christophe
$sudo fink install apbs
Scanning package description files..........
Information about 7099 packages read in 1 seconds.
The following package will be installed or updated:
apbs
Setting runtime build-lock...
dpkg-deb -b /sw2/src/fink.build/root-fink-buildlock-apbs-1.4.0-1
/sw2/src/fink.build
dpkg-deb : construction du paquet « fink-buildlock-apbs-1.4.0-1 » dans «
/sw2/src/fink.build/fink-buildlock-apbs-1.4.0-1_2013.03.21-09.43.07_darwin-x86_64.deb
».
Installing build-lock package...
/sw2/bin/dpkg-lockwait -i
/sw2/src/fink.build/fink-buildlock-apbs-1.4.0-1_2013.03.21-09.43.07_darwin-x86_64.deb
Sélection du paquet fink-buildlock-apbs-1.4.0-1 précédemment désélectionné.
(Lecture de la base de données... 173591 fichiers et répertoires déjà
installés.)
Dépaquetage de fink-buildlock-apbs-1.4.0-1 (à partir de
.../fink-buildlock-apbs-1.4.0-1_2013.03.21-09.43.07_darwin-x86_64.deb) ...
Paramétrage de fink-buildlock-apbs-1.4.0-1 (2013.03.21-09.43.07) ...
sudo -u fink-bld [ENV] sh -c /tmp/fink.CCBjE
/sw2/bin/tar --no-same-owner --no-same-permissions -xf
/sw2/src/APBS-1.4-source.tar.gz
sudo -u fink-bld [ENV] sh -c /tmp/fink.NZSM_
/tmp/fink.KwT2u
#!/bin/bash -efv
cd build
CMAKE_OPTIONS="-DCMAKE_INSTALL_PREFIX=/sw2 \
-DCMAKE_VERBOSE_MAKEFILE=ON \
-DCMAKE_COLOR_MAKEFILE=ON \
-DCMAKE_BUILD_TYPE=Release \
-DCMAKE_BUILD_WITH_INSTALL_RPATH=ON \
-DCMAKE_INSTALL_NAME_DIR=/sw2/lib \
-DCMAKE_SYSTEM_PREFIX_PATH=\"/sw2;\/usr\" \
-DCMAKE_FIND_FRAMEWORK=LAST \
-DENABLE_OPENMP:BOOL=OFF \
-DENABLE_MPI:BOOL=OFF"
cmake $CMAKE_OPTIONS -DCMAKE_C_FLAGS="-I/sw2/include -O3 -ffast-math -g" ..
/tmp/fink.KwT2u: line 13: cmake: command not found
### execution of /tmp/fink.KwT2u failed, exit code 127
### execution of /tmp/fink.NZSM_ failed, exit code 127
Removing runtime build-lock...
Removing build-lock package...
/sw2/bin/dpkg-lockwait -r fink-buildlock-apbs-1.4.0-1
(Lecture de la base de données... 173592 fichiers et répertoires déjà
installés.)
Suppression de fink-buildlock-apbs-1.4.0-1 ...
Failed: phase compiling: apbs-1.4.0-1 failed
Before reporting any errors, please run "fink selfupdate" and try again.
If you continue to have issues, please check to see if the FAQ on Fink's
website solves the problem. If not, ask on one (not both, please) of
these mailing lists:
The Fink Users List <[email protected]>
The Fink Beginners List <[email protected]>,
with a carbon copy to the maintainer:
W. G. Scott <[email protected]>
Note that this is preferable to emailing just the maintainer directly,
since most fink package maintainers do not have access to all possible
hardware and software configurations.
Please try to include the complete error message in your report. This
generally consists of a compiler line starting with e.g. "gcc" or "g++"
followed by the actual error output from the compiler.
Also include the following system information:
Package manager version: 0.34.6
Distribution version: selfupdate-rsync Wed Mar 20 11:49:21 2013, 10.8, x86_64
Trees: local/main stable/main local/injected
Xcode.app: 4.6.1
Xcode command-line tools: 4.6.0.0.1.1362189000
Max. Fink build jobs: 1
______________________
Jean-Christophe Amé, PhD
Équipe "Poly(ADP-ribosyl)ation et intégrité du génome"
Institut de Recherche de l'École de Biotechnologie de Strasbourg
UMR7242 du CNRS - UdS
Université de Strasbourg
École Supérieure de Biotechnologie de Strasbourg
Pôle API
Parc d'innovation, Boulevard Sébastien Brant
BP 10413
67412 ILLKIRCH CEDEX
France
tel.: +33 (0)3 68 85 47 05
Fax.: +33 (0)3 68 85 46 86
http://parplink.u-strasbg.fr
http://irebs.cnrs.fr
« Science sans conscience n'est que ruine de l'âme ...» (François Rabelais,
1483-1553)
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