[Libmesh-users] How to create local copy of documentation

2013-08-21 Thread Praveen C
Hello Is it possible to generate a local html copy of doxygen documentation, including documentation of examples. If I try make doc I get some errors cd $dir ; \ make doc ; \ cp *.php /Users/praveen/Applications/libmesh/libmesh-0.9.2.1/doc/html ; \ cd - ; \ done CXX example_opt-

Re: [Libmesh-users] compiling libmesh on Cray

2013-08-21 Thread Jim Fonseca
Many thanks for everyone's help with this. It is resolved now and your suggestions sent me down the right path. >From Blue Waters support: Static linking is and has been the default on BW when compiling applications for the CPUs. For the GPUs, when you load the cudatoolkit module, it sets XTPE_LIN

Re: [Libmesh-users] compiling libmesh on Cray

2013-08-21 Thread Jim Fonseca
Hi John, Here is the config.log. Many thanks for the suggestions--I will look into those. Thanks, Jim On Wed, Aug 21, 2013 at 2:03 PM, John Peterson wrote: > > > On Wed, Aug 21, 2013 at 12:59 PM, John Peterson wrote: > >> >> >> >> On Wed, Aug 21, 2013 at 12:56 PM, John Peterson >> wrote: >> >

Re: [Libmesh-users] compiling libmesh on Cray

2013-08-21 Thread John Peterson
On Wed, Aug 21, 2013 at 12:59 PM, John Peterson wrote: > > > > On Wed, Aug 21, 2013 at 12:56 PM, John Peterson > wrote: > > > > > > > > > > On Wed, Aug 21, 2013 at 11:42 AM, Jim Fonseca > wrote: > >> > >> Hi John, > >> From make V=1 > >> > >> > > Thanks. > > > > So I guess my next question is: w

Re: [Libmesh-users] What does this error mean?

2013-08-21 Thread subramanya sadasiva
Hi John, running in dbg doesn't give me any additional information. Thanks, Subramanya From: jwpeter...@gmail.com Date: Wed, 21 Aug 2013 12:48:22 -0600 Subject: Re: [Libmesh-users] What does this error mean? To: pota...@outlook.com CC: libmesh-users@lists.sourceforge.net; petsc-us...@mcs.anl.g

Re: [Libmesh-users] compiling libmesh on Cray

2013-08-21 Thread John Peterson
On Wed, Aug 21, 2013 at 12:56 PM, John Peterson wrote: > > > > > On Wed, Aug 21, 2013 at 11:42 AM, Jim Fonseca wrote: >> >> Hi John, >> From make V=1 >> >> > Thanks. > > So I guess my next question is: what does "CC" do on Cray when you try to use it for linking? Does it need to be passed a '-sh

Re: [Libmesh-users] compiling libmesh on Cray

2013-08-21 Thread John Peterson
On Wed, Aug 21, 2013 at 11:42 AM, Jim Fonseca wrote: > Hi John, > From make V=1 > > make[1]: Entering directory > `/mnt/b/projects/sciteam/jna/NEMO5_PETSc3.4_no_MAGMA_new_libmesh/libs/libmesh/libmesh' > /bin/sh ./libtool --tag=CXX --mode=link CC -O2 -felide-constructors > -funroll-loops -fstr

Re: [Libmesh-users] What does this error mean?

2013-08-21 Thread John Peterson
On Wed, Aug 21, 2013 at 12:42 PM, subramanya sadasiva wrote: > I have a phase-field code implemented using libmesh 0.9.2 and petsc-3.4.2 > using the petscdm based nonlinear solver. This code works on OS X 10.8.4. > However, when I tried to build and run this code on a linux machine, I get > the fo

[Libmesh-users] What does this error mean?

2013-08-21 Thread subramanya sadasiva
I have a phase-field code implemented using libmesh 0.9.2 and petsc-3.4.2 using the petscdm based nonlinear solver. This code works on OS X 10.8.4. However, when I tried to build and run this code on a linux machine, I get the following error. [0]PETSC ERROR: - Error Messag

Re: [Libmesh-users] compiling libmesh on Cray

2013-08-21 Thread Jim Fonseca
Hi John, >From make V=1 make[1]: Entering directory `/mnt/b/projects/sciteam/jna/NEMO5_PETSc3.4_no_MAGMA_new_libmesh/libs/libmesh/libmesh' /bin/sh ./libtool --tag=CXX --mode=link CC -O2 -felide-constructors -funroll-loops -fstrict-aliasing -Wdisabled-optimization -fopenmp-o getpot_parse-

Re: [Libmesh-users] compiling libmesh on Cray

2013-08-21 Thread John Peterson
On Wed, Aug 21, 2013 at 9:07 AM, Jim Fonseca wrote: > Hi John, > Yes, it's an email issue. Screenshot attached. > I see. I think it might help if we could see the actual output of libtool, so would you try running 'make V=1' and sending the output? On my machine, for instance, that prints: lib

Re: [Libmesh-users] compiling libmesh on Cray

2013-08-21 Thread Jim Fonseca
Hi John, Yes, it's an email issue. Screenshot attached. Thanks, Jim On Wed, Aug 21, 2013 at 9:49 AM, John Peterson wrote: > This could be an email parsing bug, but I noticed: > > > On Wed, Aug 21, 2013 at 8:41 AM, Jim Fonseca wrote: > >> >> $ /bin/sh ./libtool --silent --tag=CXX --mode=link

Re: [Libmesh-users] compiling libmesh on Cray

2013-08-21 Thread John Peterson
This could be an email parsing bug, but I noticed: On Wed, Aug 21, 2013 at 8:41 AM, Jim Fonseca wrote: > > $ /bin/sh ./libtool --silent --tag=CXX --mode=link CC -O2 > -felide-constructors -funroll-loops -fstrict-aliasing > -Wdisabled-optimization -fopenmp-o getpot_parse-opt > src/apps/

Re: [Libmesh-users] compiling libmesh on Cray

2013-08-21 Thread Jim Fonseca
Thanks Ben, Could you please take a look at where it is failing (config.log attached). For 0.9.2.1 Here is the line that's failing from make -n and the output when I run it. I've $ /bin/sh ./libtool --silent --tag=CXX --mode=link CC -O2 -felide-constructors -funroll-loops -fstrict-aliasing -W