Package Details: freesurfer-bin 6.0.0-2

Git Clone URL: https://aur.archlinux.org/freesurfer-bin.git (read-only, click to copy)
Package Base: freesurfer-bin
Description: An open source software suite for processing and analyzing (human) brain MRI images. (Precompiled binary version)
Upstream URL: https://surfer.nmr.mgh.harvard.edu/
Licenses: custom
Conflicts: freesurfer
Provides: freesurfer
Submitter: fishburn
Maintainer: Roosted7
Last Packager: fishburn
Votes: 1
Popularity: 0.000047
First Submitted: 2017-11-26 00:33
Last Updated: 2018-02-27 22:49

Latest Comments

keiichiiownsu12 commented on 2020-02-14 02:46

freeview is returning [0]PETSC errors after a recent update, though none of its dependencies were affected. Qdec still seems to work though.

Has anyone encountered a similar problem recently?

output is as follows

  $freeview
[0]PETSC ERROR: ------------------------------------------------------------------------
[0]PETSC ERROR: Caught signal number 8 FPE: Floating Point Exception,probably divide by zero
[0]PETSC ERROR: Try option -start_in_debugger or -on_error_attach_debugger
[0]PETSC ERROR: or see http://www.mcs.anl.gov/petsc/petsc-as/documentation/troubleshooting.html#Signal[0]PETSC ERROR: or try http://valgrind.org on linux or man libgmalloc on Apple to find memory corruption errors
[0]PETSC ERROR: configure using --with-debugging=yes, recompile, link, and run 
[0]PETSC ERROR: to get more information on the crash.
[0]PETSC ERROR: --------------------- Error Message ------------------------------------
[0]PETSC ERROR: Signal received!
[0]PETSC ERROR: ------------------------------------------------------------------------
[0]PETSC ERROR: Petsc Release Version 2.3.3, Patch 13, Thu May 15 17:29:26 CDT 2008 HG revision: 4466c6289a0922df26e20626fd4a0b4dd03c8124
[0]PETSC ERROR: See docs/changes/index.html for recent updates.
[0]PETSC ERROR: See docs/faq.html for hints about trouble shooting.
[0]PETSC ERROR: See docs/index.html for manual pages.
[0]PETSC ERROR: ------------------------------------------------------------------------
[0]PETSC ERROR: Unknown Name on a linux-gnu named myfirstarch by ajschadler12 Thu Feb 13 18:45:15 2020
[0]PETSC ERROR: Libraries linked from /autofs/space/lyon_006/pubsw/Linux2-2.3-x86_64/packages/petsc/2.3.3-p13/src/petsc-2.3.3-p13/lib/linux-gnu-c-opt
[0]PETSC ERROR: Configure run at Tue Aug 10 15:01:59 2010
[0]PETSC ERROR: Configure options --with-debugging=no --with-cc=gcc --with-fc=g77 --download-f-blas-lapack=0 --download-mpich=1 --with-mpi=1 --with-x=0 --with-gnu-copyright-code=0 --with-shared=0 COPTFLAGS=-O3 CXXOPTFLAGS=-O3 FOPTFLAGS=-O3
[0]PETSC ERROR: ------------------------------------------------------------------------
[0]PETSC ERROR: User provided function() line 0 in unknown directory unknown file
[unset]: aborting job:
application called MPI_Abort(MPI_COMM_WORLD, 59) - process 0
  

keiichiiownsu12 commented on 2020-01-03 04:54

@liamtimms well, doing so would give me a reason to both learn and practice the arch-build system. I'll give building from source a try on my own first and will get in touch with you if it works out

liamtimms commented on 2020-01-03 04:48

@keiichiiownsu12 I would be interested in a git version but building Freesurfer is a bit involved and requires downloading of large separate binaries anyway. Feel free to email me if you want to collaborate on this.

keiichiiownsu12 commented on 2019-10-08 22:54

Just curious, would anyone be interested in a git-version of freesurfer? I'm thinking I might try and compile the latest dev-build myself; if I'm successful, might be able to post it as an AUR package

keiichiiownsu12 commented on 2019-09-23 21:27

curious if anyone knows where freeview.bin sources its icon from? I'm trying to create a .desktop file for freeview and would like to use the same icon for it

dfk commented on 2018-02-19 19:04

makepkg fails for me with an ext4 formatted filesystem: I get a ton of "cp: failed to clone ... from ...: operation not permitted" which I think has to do with the "cp reflink=always" (is that a btrfs only thing?). Changing that to "reflink=auto" works and (I think) will still allow reflinks when possible.

also you might consider setting pkgext to .tar since compressing such a large package seems like a waste of time to me.