[Freesurfer] Building from source without GUIs

2012-01-06 Thread Malcolm Tobias
ot found. Check config.log. Set LDFLAGS or -- with-BLT-dir. but the instructions imply that BLT is only necessary for GUIs. Are there additional arguments that I need to pass to configure? Malcolm -- Malcolm Tobias 314.362.1594 ___ Freesurfer mailing

Re: [Freesurfer] Building from source without GUIs

2012-01-09 Thread Malcolm Tobias
> On Fri, 2012-01-06 at 11:30 -0600, Malcolm Tobias wrote: > > I'm attempting to build the development branch of the source code. > > To reduce dependencies, I'm trying to build without any of the GUI > > support using the flags: > > > > --disable-all-app

Re: [Freesurfer] Building from source without GUIs

2012-01-09 Thread Malcolm Tobias
igure script. > hopefully --disable-all-apps will then work. > > n. > > On Mon, 2012-01-09 at 11:51 -0600, Malcolm Tobias wrote: > > Nick, > > > > I'm getting the same error: > > > > [root@login002 freesurfer-dev-20120106]# ./configure --disable-

Re: [Freesurfer] Building from source without GUIs

2012-01-09 Thread Malcolm Tobias
day 09 January 2012 13:36:37 Nick Schmansky wrote: > malcolm, > > can you try using the attached configure.in? you will need to > run ./setup_configure, which will create a new configure script. > hopefully --disable-all-apps will then work. > > n. > > On Mon, 2012-

Re: [Freesurfer] Building from source without GUIs

2012-01-10 Thread Malcolm Tobias
attached is a fix. run > setup_configure again to regenerate configure. its been awhile since > someone built a non-gui build offsite, so there could be other problems. > > n. > > On Mon, 2012-01-09 at 15:07 -0600, Malcolm Tobias wrote: > > Nick, > > > > Wh

[Freesurfer] Is building with OpenMP supported?

2012-01-10 Thread Malcolm Tobias
on how well FreeSurfer is parallelized, OpenMP could be a great benefit for us here, but if it doesn't work too well, or isn't really supported, I can move on to try other things. Cheers, Malcolm -- Malcolm Tobias 314.362.1594 ___

Re: [Freesurfer] Building from source without GUIs

2012-01-11 Thread Malcolm Tobias
to building from scratch or a result of using the development branch. My real goal is to revisit building with the Intel compilers (which I bugged you about 1 year ago). I'm close, but that should be a topic for a different thread ;-) Cheers, Malcolm -- Malcolm Tobias 314.362.1594

[Freesurfer] Performance questions

2012-01-13 Thread Malcolm Tobias
Besides GPUs, what else are people doing to increase performance? Cheers, Malcolm -- Malcolm Tobias 314.362.1594 ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information

Re: [Freesurfer] Performance questions

2012-01-18 Thread Malcolm Tobias
memory layout of freesurfer structures > (minimizing cache-line hits). > > Nick > > On Fri, 2012-01-13 at 09:13 -0500, Bruce Fischl wrote: > > Hi Malcolm > > > > in collaboration with IBM we are also looking at MPI and pthreads. > > > > cheers > >

Re: [Freesurfer] Performance questions

2012-01-18 Thread Malcolm Tobias
> >> Freesurfer mailing list > >> Freesurfer@nmr.mgh.harvard.edu > >> https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > > ___ > > Freesurfer mailing list > > Freesurf

[Freesurfer] How to validate custom-built FreeSurfer binaries?

2012-01-19 Thread Malcolm Tobias
o you guys normally do to test out a build before releasing it? Cheers, Malcolm -- Malcolm Tobias 314.362.1594 ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer The information