[Mne_analysis] static executables?

[Krieger, Donald N.]

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<mailto: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<mailto: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


_______________________________________________
Mne_analysis mailing list
Mne_analysis at nmr.mgh.harvard.edu<mailto:Mne_analysis at nmr.mgh.harvard.edu>
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/mne_analysis


The information in this e-mail is intended only for the person to whom it is
addressed. If you believe this e-mail was sent to you in error and the e-mail
contains patient information, please contact the Partners Compliance HelpLine at
http://www.partners.org/complianceline . If the e-mail was sent to you in error
but does not contain patient information, please contact the sender and properly
dispose of the e-mail.


-------------- next part --------------
An HTML attachment was scrubbed...
URL: http://mail.nmr.mgh.harvard.edu/pipermail/mne_analysis/attachments/20141007/f7f2cb3e/attachment.html