Hi,
the make install error occurred again last night, but with a different
error:
CC arch-linux2-c-debug/obj/src/tao/leastsquares/impls/pounders/gqt.o
CLINKER
/pmi/cmpbib/compilation_BIB_gcc_redhat_petsc-master_debug/COMPILE_AUTO/petsc-master-debug/arch-linux2-c-debug/lib/libpetsc.so.3.06.3
gmake[2]: Leaving directory
`/pmi/cmpbib/compilation_BIB_gcc_redhat_petsc-master_debug/COMPILE_AUTO/petsc-master-debug'
=========================================
gmake[1]: Leaving directory
`/pmi/cmpbib/compilation_BIB_gcc_redhat_petsc-master_debug/COMPILE_AUTO/petsc-master-debug'
Now to install the libraries do:
make
PETSC_DIR=/pmi/cmpbib/compilation_BIB_gcc_redhat_petsc-master_debug/COMPILE_AUTO/petsc-master-debug
PETSC_ARCH=arch-linux2-c-debug install
=========================================
*** Using
PETSC_DIR=/pmi/cmpbib/compilation_BIB_gcc_redhat_petsc-master_debug/COMPILE_AUTO/petsc-master-debug
PETSC_ARCH=arch-linux2-c-debug ***
No cached configure in RDict at
/pmi/cmpbib/compilation_BIB_gcc_redhat_petsc-master_debug/COMPILE_AUTO/petsc-master-debug/arch-linux2-c-debug/lib/petsc/conf/RDict.db
Traceback (most recent call last):
File "./config/install.py", line 380, in <module>
Installer(sys.argv[1:]).run()
File "./config/install.py", line 373, in run
self.runsetup()
File "./config/install.py", line 334, in runsetup
self.setup()
File "./config/install.py", line 60, in setup
self.setupModules()
File "./config/install.py", line 51, in setupModules
self.setCompilers = self.framework.require('config.setCompilers',
None)
AttributeError: 'NoneType' object has no attribute 'require'
make: *** [install] Error 1
Here are the logs:
http://www.giref.ulaval.ca/~cmpgiref/petsc-master-debug/2016.03.09.02h00m02s_configure.log
http://www.giref.ulaval.ca/~cmpgiref/petsc-master-debug/2016.03.09.02h00m02s_default.log
http://www.giref.ulaval.ca/~cmpgiref/petsc-master-debug/2016.03.09.02h00m02s_RDict.log
http://www.giref.ulaval.ca/~cmpgiref/petsc-master-debug/2016.03.09.02h00m02s_make.log
http://www.giref.ulaval.ca/~cmpgiref/petsc-master-debug/2016.03.09.02h00m02s_CMakeLists.txt
And the log from our scripts, with "env" output at the beginning:
http://www.giref.ulaval.ca/~cmpgiref/petsc-master-debug/2016.03.09.02h00m02s.script.log
May I launch a the make install with some debugging variables activated to see
more output that might help?
I can also launch the scripts in a while loop until it bug again to help dig
this problem...
Thanks,
Eric
Le 16-03-03 20:35, Éric Chamberland a écrit :
Hi, it's weird. I launched my compilation script on another computer,
and everything was fine with the petsc-master.tar.gz... So I launched
it on the faulty computer, but it installed with succes... however,
there is no "default.log" file after the make procedure...?? Here are
the non-problematic logs:
http://www.giref.ulaval.ca/~cmpgiref/petsc-master-debug/2016.03.03.18h22m37s_configure.log
http://www.giref.ulaval.ca/~cmpgiref/petsc-master-debug/2016.03.03.18h22m37s_RDict.log
What can I say? Some thoughts: - All this is completely automated by a
crontab... so the environment variables shall be the same each
night... - configure+make+make install are launched by the script
without any "human pause" in between the end of each command: if
there is anything launched in the background by make, maybe it is not
ended before the beginning of make install? I saw that there are also
"make.log", "build.log" ".nagged", CMakeLists.txt files generated: do
they should be inspected? Unfortunately, be runing the script again, I
erased the faulty petsc directory... so I am only left with the
configure.log+RDict.log+default.log I put on the web page... :/
Thanks, Eric Le 16-03-03 17:29, Satish Balay a écrit :
I tried a few builds - but I can't reproduce. So I do not know whats
going on here [and what the trigger is].. Tried a configure command
as close as possible to this one.. [and used the nightlytarball
aswell] balay@es^/scratch/balay/petsc-master $ ./configure
--prefix=/scratch/balay/petsc-install --with-mpi-compilers=1
--with-make-np=12 --with-shared-libraries=1 --download-openmpi
--with-debugging=yes --with-mkl_pardiso=1 --with-mkl_pardiso-dir=$MKL
--download-ml=yes --download-mumps=yes --download-superlu=yes
--download-superlu_dist=yes --download-parmetis=yes
--download-ptscotch=yes --download-metis=yes
--download-suitesparse=yes --download-hypre=yes --with-scalapack=1
--with-scalapack-include=$MKL/include
--with-scalapack-lib="-lmkl_scalapack_lp64 -lmkl_blacs_openmpi_lp64"
--with-blas-lapack-dir=$MKL --download-cmake Satish On Thu, 3 Mar
2016, Matthew Knepley wrote:
On Thu, Mar 3, 2016 at 5:42 AM, Éric Chamberland <
[email protected]> wrote:
Hi, since last night, with petsc-master.tar.gz, it seems that "make
install" is broken. Please have a look at these errors:
Satish, do you see this? We had something like this before, but it
was fixed. Matt
==================== ... CC
arch-linux2-c-debug/obj/src/tao/leastsquares/impls/pounders/gqt.o
CLINKER
/pmi/cmpbib/compilation_BIB_gcc_redhat_petsc-master_debug/COMPILE_AUTO/petsc-master-debug/arch-linux2-c-debug/lib/libpetsc.so.3.06.3
gmake[2]: Leaving directory
`/pmi/cmpbib/compilation_BIB_gcc_redhat_petsc-master_debug/COMPILE_AUTO/petsc-master-debug'
========================================= gmake[1]: Leaving
directory
`/pmi/cmpbib/compilation_BIB_gcc_redhat_petsc-master_debug/COMPILE_AUTO/petsc-master-debug'
Now to install the libraries do: make
PETSC_DIR=/pmi/cmpbib/compilation_BIB_gcc_redhat_petsc-master_debug/COMPILE_AUTO/petsc-master-debug
PETSC_ARCH=arch-linux2-c-debug install
========================================= *** Using
PETSC_DIR=/pmi/cmpbib/compilation_BIB_gcc_redhat_petsc-master_debug/COMPILE_AUTO/petsc-master-debug
PETSC_ARCH=arch-linux2-c-debug *** No cached configure in
RDict at
/pmi/cmpbib/compilation_BIB_gcc_redhat_petsc-master_debug/COMPILE_AUTO/petsc-master-debug/arch-linux2-c-debug/lib/petsc/conf/RDict.db
Traceback (most recent call last): File "./config/install.py",
line 380, in <module> Installer(sys.argv[1:]).run() File
"./config/install.py", line 373, in run self.runsetup()
File "./config/install.py", line 334, in runsetup self.setup()
File "./config/install.py", line 60, in setup
self.setupModules() File "./config/install.py", line 51, in
setupModules self.setCompilers =
self.framework.require('config.setCompilers', None)
AttributeError: 'NoneType' object has no attribute 'require' make:
*** [install] Error 1 ================================= Some useful
logs:
http://www.giref.ulaval.ca/~cmpgiref/petsc-master-debug/configure_2016.03.03.02h00m01s.loghttp://www.giref.ulaval.ca/~cmpgiref/petsc-master-debug/2016.03.03.02h00m01s_RDict.loghttp://www.giref.ulaval.ca/~cmpgiref/petsc-master-debug/2016.03.03.02h00m01s_default.log
Thanks! Eric Le 16-02-27 15:36, Barry Smith a écrit : PETSc
Users, We are planning the PETSc release 3.7 shortly. If you
know of any bugs that need to be fixed or enhancements added before
the release please let us know. You can think of the master
branch of the PETSc repository obtainable with git clone
https://bitbucket.org/petsc/petsc petsc as a release candidate for
3.7. Changes for the release are listed at
http://www.mcs.anl.gov/petsc/documentation/changes/dev.html
Thanks Barry
