[Mne_analysis] static executables?

[Eric Larson]

FYI I originally got the libs from the Ubuntu repos, in case you're curious
(or in case I eventually delete the libs from my site):

https://launchpad.net/ubuntu/hardy/i386/libgfortran1
https://launchpad.net/ubuntu/hardy/amd64/libgfortran1

Yes, you should be able to set the LD_LIBRARY_PATH environment variable. In
fact this is one of the things that the mne_setup_sh script does to ensure
that things like "libquicktime.so" can be found in the mne/lib directory,
which is why I typically just put libgfortran.so.1 in there. I don't think
you'll need to do anything else, but if it doesn't work you should be able
to work out from the mne_setup_sh script if anything else is necessary.

Eric

On Tue, Oct 7, 2014 at 11:15 AM, Krieger, Donald N. <kriegerd at upmc.edu>
wrote:

>  Hi Eric,
>
>
>
> Thanks for posting back so quickly.
>
>
>
> I would be happy to upload the library with each copy of the job and I do
> have it.
>
> How do I get the executables to find it in a local directory I create?
>
> Is there an environmental variable, something like LD_LIBRARY_PATH that I
> can set.
>
>
>
> Regards,
>
>
>
> Don
>
>
>
>
>
> *From:* mne_analysis-bounces at nmr.mgh.harvard.edu [mailto:
> mne_analysis-bounces at nmr.mgh.harvard.edu] *On Behalf Of *Eric Larson
> *Sent:* Tuesday, October 07, 2014 1:59 PM
> *To:* Discussion and support forum for the users of MNE Software
> *Subject:* Re: [Mne_analysis] static executables?
>
>
>
> Actually, I forgot I uploaded them to my website for convenience at one
> point:
>
>
>
> http://faculty.washington.edu/larsoner/libgfortran.so.1s.zip
>
>
>
> Just rename the appropriate libgfortran.so.1.i686 or
> libgfortran.so.1.x86_64 to libgfortran.so.1, put it in e.g. mne/lib (same
> place that libquicktime.so lives) and you should be good to go.
>
>
>
> Eric
>
>
>
>
>
> On Tue, Oct 7, 2014 at 10:55 AM, Eric Larson <larson.eric.d at gmail.com>
> wrote:
>
> If it's easy for you to use Python, equivalent (and in some cases faster
> or more capable) functionality for setting up volume source spaces and
> computing forward solutions exists in mne-python.
>
>
>
> If it's only the Fortran libraries (specifically libgfortran.so.1) that
> you need, shoot me an email and I can give you a copy of the x86_64 and
> i686 versions that other people have used with success (and I have used
> over many versions of Ubuntu). I recently set up an Ubuntu 12.04 server VM
> for testing recently, and all I needed to run the MNE command-line tools
> was a copy of libgfortran.so.1 (which I put in the mne/libs dir), and some
> of the X libraries which were accessible via apt-get -- I imagine a similar
> solution would work for you.
>
>
>
> Eric
>
>
>
>
>
> On Tue, Oct 7, 2014 at 10:43 AM, Krieger, Donald N. <kriegerd at upmc.edu>
> wrote:
>
> Dear MNE team:
>
> I need static executables for mne_volume_source_space and
> mne_forward_solution .
> I am using these in a processing stream which is deployed to the open
> science grid and am encountering many machines which lack the shared
> fortran libraries on which the executables in your standard distribution
> rely.
>
> Is it easy to create relink them to create static versions?
> Are there some out there to which you could point me?
>
> I am using version 2.9 of mne_forward_solution (compiled 1Feb2013)
> and version 1.11 of mne_volume_source_space (also compiled 1Feb2013).
>
> Thanks for any help you can provide.
>
> Regards,
>
> Don
>
> Don Krieger, Ph.D.
> Department of Neurological Surgery
> University of Pittsburgh
>
>
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