[petsc-users] Error configuring with Ctetgen

[Justin Chang]

I deleted my entire petsc developer directory, redownloaded it via git
clone, and configured it with all the same options. That seemed to solve
the problem for some reason.

Weird

On Mon, Oct 20, 2014 at 11:24 PM, Satish Balay <balay at mcs.anl.gov> wrote:

> Looks like this gdb is from homebrew - and has issues. Try using
>
> Perhaps you need to use lldb
>
> lldb ./ex1
>
>
> http://stackoverflow.com/questions/18423124/please-check-gdb-is-codesigned-see-taskgated8-how-to-get-gdb-installed-w
>
> Satish
>
> On Mon, 20 Oct 2014, Justin Chang wrote:
>
> > Barry, I am not sure if this is what you're asking for (I am not too
> > familiar with gdb) but here's what happened after following your
> > instructions:
> >
> > GNU gdb (GDB) 7.8
> > Copyright (C) 2014 Free Software Foundation, Inc.
> > License GPLv3+: GNU GPL version 3 or later <
> http://gnu.org/licenses/gpl.html
> > >
> > This is free software: you are free to change and redistribute it.
> > There is NO WARRANTY, to the extent permitted by law.  Type "show
> copying"
> > and "show warranty" for details.
> > This GDB was configured as "x86_64-apple-darwin13.4.0".
> > Type "show configuration" for configuration details.
> > For bug reporting instructions, please see:
> > <http://www.gnu.org/software/gdb/bugs/>.
> > Find the GDB manual and other documentation resources online at:
> > <http://www.gnu.org/software/gdb/documentation/>.
> > For help, type "help".
> > Type "apropos word" to search for commands related to "word"...
> > Reading symbols from ./ex1...
> > warning:
> `/Users/jychang48/petsc-dev/src/vec/vec/examples/tutorials/ex1.o':
> > can't open to read symbols: No such file or directory.
> > (no debugging symbols found)...done.
> > (gdb) run
> > Starting program:
> > /Users/jychang48/petsc-dev/src/vec/vec/examples/tutorials/ex1
> > Unable to find Mach task port for process-id 57136: (os/kern) failure
> (0x5).
> >  (please check gdb is codesigned - see taskgated(8))
> > (gdb) bt carriage
> > No stack.
> > (gdb)
> >
> >
> > On Mon, Oct 20, 2014 at 10:50 PM, Barry Smith <bsmith at mcs.anl.gov>
> wrote:
> >
> > >
> > >
> > >    cd src/vec/vec/examples/tutorials
> > >    make ex1
> > >    gdb ./ex1
> > >    run
> > >
> > >     if it stops type bt carriage return and send all the output
> > >
> > >
> > > > On Oct 20, 2014, at 10:37 PM, Justin Chang <jychang48 at gmail.com>
> wrote:
> > > >
> > > > I did rm-rf arch-darwin-c-debug and ran config with the following
> > > options:
> > > >
> > > > ./configure --download-exodusii --download-hdf5 --download-metis
> > > --download-mpich --download-mumps --download-netcdf --download-parmetis
> > > --download-scalapack --download-triangle --with-cc=gcc --with-cxx=g++
> > > --with-debugging=1 --with-fc=gfortran --with-valgrind=1
> -with-cmake=cmake
> > > --download-ctetgen
> > > >
> > > > And it compiles. However, once I run make all test I get the error
> > > "Attempting to use an MPI routine before initializing MPICH" when it
> > > attempts to run the test examples. Now I can't run any PETSc code
> > > whatsoever. Attached are the new make and configure log files.
> > > >
> > > > Thanks,
> > > > Justin
> > > >
> > > > On Mon, Oct 20, 2014 at 9:57 PM, Satish Balay <balay at mcs.anl.gov>
> wrote:
> > > > Try:
> > > >
> > > > rm -rf arch-darwin-c-debug
> > > > and rerun onfigure
> > > >
> > > > [basically you have old version of ctetgen - and configure does not
> > > > have smarts to detect this or update to the appropriate version
> > > > automatically.  And its likely you have old versions of other
> packages
> > > > aswell - so its best to do a clean build]
> > > >
> > > > BTW - you shouldn't need --download-fblaslapack on OSX [as it
> provides
> > > > -llapack -lblas via vecLib]
> > > >
> > > > Satish
> > > >
> > > > On Mon, 20 Oct 2014, Justin Chang wrote:
> > > >
> > > > > Hi all,
> > > > >
> > > > > On my MacOSx I am trying to install the developer's version of
> petsc
> > > with
> > > > > the following options:
> > > > >
> > > > > ./configure --download-exodusii --download-fblaslapack
> --download-hdf5
> > > > > --download-metis --download-mpich --download-mumps
> --download-netcdf
> > > > > --download-parmetis --download-scalapack --download-triangle
> > > --with-cc=gcc
> > > > > --with-cxx=g++ --with-debugging=1 --with-fc=gfortran
> --with-valgrind=1
> > > > > -with-cmake=cmake --download-ctetgen
> > > > >
> > > > > The error I get is with the --download-ctetgen option
> > > > >
> > > > >
> > >
> *******************************************************************************
> > > > >          UNABLE to CONFIGURE with GIVEN OPTIONS    (see
> configure.log
> > > for
> > > > > details):
> > > > >
> > >
> -------------------------------------------------------------------------------
> > > > > Error running make on Ctetgen: Could not execute "cd
> > > > >
> > >
> /Users/jychang48/petsc-dev/arch-darwin-c-debug/externalpackages/ctetgen &&
> > > > > /usr/bin/make PETSC_DIR=/Users/jychang48/petsc-dev
> install-ctetgen":
> > > > > make: *** No rule to make target `install-ctetgen'.  Stop.
> > > > >
> > >
> *******************************************************************************
> > > > >
> > > > > Do you guys know what is wrong? Attached are the make and log
> files.
> > > > >
> > > > > Thanks,
> > > > > Justin
> > > > >
> > > >
> > > >
> > > > <configure.log><make.log>
> > >
> > >
> >
>
>
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