Freesurfer September 2017

freesurfer@nmr.mgh.harvard.edu

109 participants
199 discussions

longitudinal freesurfer- different scanners
by Michelle VanTieghem 21 Sep '17

21 Sep '17

Hello, Would it be ok to use the longitudinal pipeline for scans that were acquired on different scanners (e.g time 1 and time 2 on the same scanner, time 3 on different scanner)? Would the longitudinal pipeline help to account for different scanners, since it creates the average base image for all 3 time points? or is this not recommended? Thank you, Michelle -- Michelle VanTieghem PhD student in Psychology Developmental Affective Neuroscience Lab Columbia University mrv2115(a)columbia.edu

3 5

Longitudinal processing -qcache ERROR
by Lisa Delalande 21 Sep '17

21 Sep '17

Hi everyone, During my PhD, I'm using some longitudinal data and at the setp called "BASE" but when i want to make a qcache processing with the last version of FreeSurfer (i.e. 6.0)(command used : "*recon-all -base template_1-02 -qcache*") it doesn't work. I have a error message : "Error : cannot find /.../template_1-02/surf/*lh.w-g.pct.mgh*" I would like to kown if you know where the problem comes ? And what can I do to fix it ? Thank you, Best regards, Lisa

2 1

Newborn MRI segmentation
by Paula Diniz 21 Sep '17

21 Sep '17

Hi experts! I want to perform recon-all pipeline on newborn MRI data. How I can do this? Which atlas you recommend? Any news about infant pipeline? Thanks!! Paula Diniz

2 1

Re: [Freesurfer] Freeview aborts under centos6
by Markus Gschwind 21 Sep '17

21 Sep '17

Dear Andrew, So the sys admin has changed the libraries. however, it did not change anything. Freeview aborts without comment. Below the command you asked for the result. Any other ideas? What other info would you like to get? Sorry for that persisting problem! And thanks for your help! Markus ls -l $FREESURFER_HOME/lib/vtk/lib/vtk-5.6/libvtk* lrwxrwxrwx 1 sagon unige 21 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkalglib.so -> libvtkalglib.so.5.6.0 lrwxrwxrwx 1 sagon unige 21 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkalglib.so.5.6 -> libvtkalglib.so.5.6.0 -rwxr-xr-x 1 sagon unige 146394 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkalglib.so.5.6.0 lrwxrwxrwx 1 sagon unige 21 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkCommon.so -> libvtkCommon.so.5.6.0 lrwxrwxrwx 1 sagon unige 21 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkCommon.so.5.6 -> libvtkCommon.so.5.6.0 -rwxr-xr-x 1 sagon unige 3703594 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkCommon.so.5.6.0 lrwxrwxrwx 1 sagon unige 24 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkCommonTCL.so -> libvtkCommonTCL.so.5.6.0 lrwxrwxrwx 1 sagon unige 24 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkCommonTCL.so.5.6 -> libvtkCommonTCL.so.5.6.0 -rwxr-xr-x 1 sagon unige 1499456 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkCommonTCL.so.5.6.0 lrwxrwxrwx 1 sagon unige 26 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkDICOMParser.so -> libvtkDICOMParser.so.5.6.0 lrwxrwxrwx 1 sagon unige 26 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkDICOMParser.so.5.6 -> libvtkDICOMParser.so.5.6.0 -rwxr-xr-x 1 sagon unige 145360 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkDICOMParser.so.5.6.0 lrwxrwxrwx 1 sagon unige 21 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkexoIIc.so -> libvtkexoIIc.so.5.6.0 lrwxrwxrwx 1 sagon unige 21 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkexoIIc.so.5.6 -> libvtkexoIIc.so.5.6.0 -rwxr-xr-x 1 sagon unige 312372 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkexoIIc.so.5.6.0 lrwxrwxrwx 1 sagon unige 24 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkFiltering.so -> libvtkFiltering.so.5.6.0 lrwxrwxrwx 1 sagon unige 24 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkFiltering.so.5.6 -> libvtkFiltering.so.5.6.0 -rwxr-xr-x 1 sagon unige 4502701 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkFiltering.so.5.6.0 lrwxrwxrwx 1 sagon unige 27 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkFilteringTCL.so -> libvtkFilteringTCL.so.5.6.0 lrwxrwxrwx 1 sagon unige 27 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkFilteringTCL.so.5.6 -> libvtkFilteringTCL.so.5.6.0 -rwxr-xr-x 1 sagon unige 2185191 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkFilteringTCL.so.5.6.0 lrwxrwxrwx 1 sagon unige 19 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkftgl.so -> libvtkftgl.so.5.6.0 lrwxrwxrwx 1 sagon unige 19 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkftgl.so.5.6 -> libvtkftgl.so.5.6.0 -rwxr-xr-x 1 sagon unige 60005 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkftgl.so.5.6.0 lrwxrwxrwx 1 sagon unige 31 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkGenericFiltering.so -> libvtkGenericFiltering.so.5.6.0 lrwxrwxrwx 1 sagon unige 31 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkGenericFiltering.so.5.6 -> libvtkGenericFiltering.so.5.6.0 -rwxr-xr-x 1 sagon unige 294583 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkGenericFiltering.so.5.6.0 lrwxrwxrwx 1 sagon unige 34 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkGenericFilteringTCL.so -> libvtkGenericFilteringTCL.so.5.6.0 lrwxrwxrwx 1 sagon unige 34 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkGenericFilteringTCL.so.5.6 -> libvtkGenericFilteringTCL.so.5.6.0 -rwxr-xr-x 1 sagon unige 153307 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkGenericFilteringTCL.so.5.6.0 lrwxrwxrwx 1 sagon unige 23 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkGraphics.so -> libvtkGraphics.so.5.6.0 lrwxrwxrwx 1 sagon unige 23 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkGraphics.so.5.6 -> libvtkGraphics.so.5.6.0 -rwxr-xr-x 1 sagon unige 8696621 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkGraphics.so.5.6.0 lrwxrwxrwx 1 sagon unige 26 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkGraphicsTCL.so -> libvtkGraphicsTCL.so.5.6.0 lrwxrwxrwx 1 sagon unige 26 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkGraphicsTCL.so.5.6 -> libvtkGraphicsTCL.so.5.6.0 -rwxr-xr-x 1 sagon unige 2517761 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkGraphicsTCL.so.5.6.0 lrwxrwxrwx 1 sagon unige 21 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkHybrid.so -> libvtkHybrid.so.5.6.0 lrwxrwxrwx 1 sagon unige 21 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkHybrid.so.5.6 -> libvtkHybrid.so.5.6.0 -rwxr-xr-x 1 sagon unige 3436930 Sep 14 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkHybrid.so.5.6.0 lrwxrwxrwx 1 sagon unige 24 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkHybridTCL.so -> libvtkHybridTCL.so.5.6.0 lrwxrwxrwx 1 sagon unige 24 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkHybridTCL.so.5.6 -> libvtkHybridTCL.so.5.6.0 -rwxr-xr-x 1 sagon unige 1085658 Sep 14 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkHybridTCL.so.5.6.0 lrwxrwxrwx 1 sagon unige 22 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkImaging.so -> libvtkImaging.so.5.6.0 lrwxrwxrwx 1 sagon unige 22 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkImaging.so.5.6 -> libvtkImaging.so.5.6.0 -rwxr-xr-x 1 sagon unige 4169350 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkImaging.so.5.6.0 lrwxrwxrwx 1 sagon unige 25 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkImagingTCL.so -> libvtkImagingTCL.so.5.6.0 lrwxrwxrwx 1 sagon unige 25 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkImagingTCL.so.5.6 -> libvtkImagingTCL.so.5.6.0 -rwxr-xr-x 1 sagon unige 883379 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkImagingTCL.so.5.6.0 lrwxrwxrwx 1 sagon unige 17 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkIO.so -> libvtkIO.so.5.6.0 lrwxrwxrwx 1 sagon unige 17 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkIO.so.5.6 -> libvtkIO.so.5.6.0 -rwxr-xr-x 1 sagon unige 6095744 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkIO.so.5.6.0 lrwxrwxrwx 1 sagon unige 20 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkIOTCL.so -> libvtkIOTCL.so.5.6.0 lrwxrwxrwx 1 sagon unige 20 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkIOTCL.so.5.6 -> libvtkIOTCL.so.5.6.0 -rwxr-xr-x 1 sagon unige 1268771 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkIOTCL.so.5.6.0 lrwxrwxrwx 1 sagon unige 22 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtklibxml2.so -> libvtklibxml2.so.5.6.0 lrwxrwxrwx 1 sagon unige 22 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtklibxml2.so.5.6 -> libvtklibxml2.so.5.6.0 -rwxr-xr-x 1 sagon unige 1769914 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtklibxml2.so.5.6.0 lrwxrwxrwx 1 sagon unige 21 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkmetaio.so -> libvtkmetaio.so.5.6.0 lrwxrwxrwx 1 sagon unige 21 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkmetaio.so.5.6 -> libvtkmetaio.so.5.6.0 -rwxr-xr-x 1 sagon unige 643391 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkmetaio.so.5.6.0 lrwxrwxrwx 1 sagon unige 21 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkNetCDF.so -> libvtkNetCDF.so.5.6.0 lrwxrwxrwx 1 sagon unige 21 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkNetCDF.so.5.6 -> libvtkNetCDF.so.5.6.0 -rwxr-xr-x 1 sagon unige 257185 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkNetCDF.so.5.6.0 lrwxrwxrwx 1 sagon unige 18 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkpng.so -> libvtkpng.so.5.6.0 lrwxrwxrwx 1 sagon unige 18 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkpng.so.5.6 -> libvtkpng.so.5.6.0 -rwxr-xr-x 1 sagon unige 168598 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkpng.so.5.6.0 lrwxrwxrwx 1 sagon unige 20 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkproj4.so -> libvtkproj4.so.5.6.0 lrwxrwxrwx 1 sagon unige 20 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkproj4.so.5.6 -> libvtkproj4.so.5.6.0 -rwxr-xr-x 1 sagon unige 335939 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkproj4.so.5.6.0 lrwxrwxrwx 1 sagon unige 24 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkRendering.so -> libvtkRendering.so.5.6.0 lrwxrwxrwx 1 sagon unige 24 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkRendering.so.5.6 -> libvtkRendering.so.5.6.0 -rwxr-xr-x 1 sagon unige 6120907 Sep 14 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkRendering.so.5.6.0 lrwxrwxrwx 1 sagon unige 27 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkRenderingTCL.so -> libvtkRenderingTCL.so.5.6.0 lrwxrwxrwx 1 sagon unige 27 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkRenderingTCL.so.5.6 -> libvtkRenderingTCL.so.5.6.0 -rwxr-xr-x 1 sagon unige 2278760 Sep 14 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkRenderingTCL.so.5.6.0 lrwxrwxrwx 1 sagon unige 21 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtksqlite.so -> libvtksqlite.so.5.6.0 lrwxrwxrwx 1 sagon unige 21 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtksqlite.so.5.6 -> libvtksqlite.so.5.6.0 -rwxr-xr-x 1 sagon unige 709297 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtksqlite.so.5.6.0 lrwxrwxrwx 1 sagon unige 18 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtksys.so -> libvtksys.so.5.6.0 lrwxrwxrwx 1 sagon unige 18 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtksys.so.5.6 -> libvtksys.so.5.6.0 -rwxr-xr-x 1 sagon unige 305372 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtksys.so.5.6.0 lrwxrwxrwx 1 sagon unige 22 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkverdict.so -> libvtkverdict.so.5.6.0 lrwxrwxrwx 1 sagon unige 22 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkverdict.so.5.6 -> libvtkverdict.so.5.6.0 -rwxr-xr-x 1 sagon unige 189017 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkverdict.so.5.6.0 lrwxrwxrwx 1 sagon unige 30 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkVolumeRendering.so -> libvtkVolumeRendering.so.5.6.0 lrwxrwxrwx 1 sagon unige 30 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkVolumeRendering.so.5.6 -> libvtkVolumeRendering.so.5.6.0 -rwxr-xr-x 1 sagon unige 4500213 Sep 14 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkVolumeRendering.so.5.6.0 lrwxrwxrwx 1 sagon unige 33 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkVolumeRenderingTCL.so -> libvtkVolumeRenderingTCL.so.5.6.0 lrwxrwxrwx 1 sagon unige 33 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkVolumeRenderingTCL.so.5.6 -> libvtkVolumeRenderingTCL.so.5.6.0 -rwxr-xr-x 1 sagon unige 420713 Sep 14 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkVolumeRenderingTCL.so.5.6.0 lrwxrwxrwx 1 sagon unige 22 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkWidgets.so -> libvtkWidgets.so.5.6.0 lrwxrwxrwx 1 sagon unige 22 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkWidgets.so.5.6 -> libvtkWidgets.so.5.6.0 -rwxr-xr-x 1 sagon unige 2425484 Sep 14 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkWidgets.so.5.6.0 lrwxrwxrwx 1 sagon unige 25 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkWidgetsTCL.so -> libvtkWidgetsTCL.so.5.6.0 lrwxrwxrwx 1 sagon unige 25 Sep 21 14:46 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkWidgetsTCL.so.5.6 -> libvtkWidgetsTCL.so.5.6.0 -rwxr-xr-x 1 sagon unige 1227320 Sep 14 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkWidgetsTCL.so.5.6.0 -rwxr-xr-x 1 sagon unige 89056 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkzlib.so -rwxr-xr-x 1 sagon unige 89056 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkzlib.so.5.6 -rwxr-xr-x 1 sagon unige 89056 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ 6.0.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkzlib.so.5.6.0 2017-09-19 20:10 GMT+02:00 Hoopes, Andrew <AHOOPES(a)mgh.harvard.edu>: > I've attached a tar of the vtk library (vtk.tar.gz). To reinstall this, > the sys admin should run: > > tar -xzvf vtk.tar.gz > rm -rf $FREESURFER_HOME/lib/vtk > mv vtk $FREESURFER_HOME/lib/ > > after doing this, running the following command should display a bunch of > symbolic links: > ls -l $FREESURFER_HOME/lib/vtk/lib/vtk-5.6/libvtk* > > If that's the case, hopefully freeview will run... or at least throw a > different error > > best > Andrew > ________________________________________ > From: Hoopes, Andrew > Sent: Tuesday, September 19, 2017 1:56 PM > To: Freesurfer support list > Subject: Re: [Freesurfer] Freeview aborts under centos6 > > Hi Markus, okay - I'll directly send you a tar of the vtk library. A > reinstall of vtk might work, because those shared objects that we > distribute are usually sym-linked > > Can you also send the fs buildstamp? You can get this by running the > command ‘bugr’ after sourcing freesurfer > > Andrew > > On Sep 19, 2017, at 11:02 AM, Markus Gschwind <markus.gschwind(a)gmail.com< > mailto:markus.gschwind@gmail.com>> wrote: > > Dear Andrew, > > after the System admin executed your proposed commands, it stays the same, > Freeview aborts. > > Is there anything else we could try? > > Thank you and best wishes, > > Markus > > 2017-09-15 20:06 GMT+02:00 Hoopes, Andrew <AHOOPES(a)mgh.harvard.edu<mailto: > AHOOPES(a)mgh.harvard.edu>>: > Hm okay thanks - I’m curious what happens when you run: > > cd $FREESURFER_HOME/lib/vtk/lib/vtk-5.6 > # backup the shared objects > mv libvtkverdict.so libvtkverdict.so.bk > mv libvtkverdict.so.5.6 libvtkverdict.so.5.6.bk > # link them to 5.6 > ln -s libvtkverdict.so.5.6.0 libvtkverdict.so > ln -s libvtkverdict.so.5.6.0 libvtkverdict.so.5.6 > > then do you get the same error from freeview? > > -Andrew > > On Sep 15, 2017, at 12:10 PM, Markus Gschwind <markus.gschwind(a)gmail.com< > mailto:markus.gschwind@gmail.com>> wrote: > > Dear Andrew, > > The command gives this result: > > [gschwind@login1 ~]$ /sbin/ldconfig -N -v $(sed 's/:/ /' <<< > $LD_LIBRARY_PATH) | grep libvtkverdict.so > /sbin/ldconfig: Can't stat /usr/lib/jvm/java-1.7.0- > openjdk-1.7.0.71.x86_64/jre/lib/amd64/server: No such file or directory > /sbin/ldconfig: /etc/ld.so.conf.d/kernel-2.6.32-642.1.1.el6.x86_64.conf:6: > duplicate hwcap 1 nosegneg > /sbin/ldconfig: /etc/ld.so.conf.d/kernel-2.6.32-642.15.1.el6.x86_64.conf:6: > duplicate hwcap 1 nosegneg > /sbin/ldconfig: /etc/ld.so.conf.d/kernel-2.6.32-642.6.2.el6.aufs21.x86_64.conf:6: > duplicate hwcap 1 nosegneg > /sbin/ldconfig: /etc/ld.so.conf.d/kernel-2.6.32-696.1.1.el6.x86_64.conf:6: > duplicate hwcap 1 nosegneg > /sbin/ldconfig: Path `/usr/lib64' given more than once > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/ > lib/vtk-5.6/libvtkalglib.so.5.6 is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkpng.so.5.6 > is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/ > lib/vtk-5.6/libvtkImagingTCL.so.5.6 is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/ > lib/vtk-5.6/libvtkWidgets.so.5.6 is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkIOTCL.so.5.6 > is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkftgl.so.5.6 > is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/ > lib/vtk-5.6/libvtkVolumeRendering.so.5.6 is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/ > lib/vtk-5.6/libvtkGenericFiltering.so.5.6 is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtksys.so.5.6 > is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/ > lib/vtk-5.6/libvtkNetCDF.so.5.6 is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/ > lib/vtk-5.6/libvtkmetaio.so.5.6 is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/ > lib/vtk-5.6/libvtkHybrid.so.5.6 is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/ > lib/vtk-5.6/libvtkFilteringTCL.so.5.6 is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/ > lib/vtk-5.6/libvtkRendering.so.5.6 is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/ > lib/vtk-5.6/libvtkWidgetsTCL.so.5.6 is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/ > lib/vtk-5.6/libvtkverdict.so.5.6 is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/ > lib/vtk-5.6/libvtkCommonTCL.so.5.6 is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libmpistubs.so.5.6 > is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkzlib.so.5.6 > is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/ > lib/vtk-5.6/libvtkGraphicsTCL.so.5.6 is not a symbolic link > libvtkverdict.so.5.6 -> libvtkverdict.so.5.6.0 > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/ > lib/vtk-5.6/libvtkRenderingTCL.so.5.6 is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/ > lib/vtk-5.6/libvtkexoIIc.so.5.6 is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/ > lib/vtk-5.6/libvtkCommon.so.5.6 is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/ > lib/vtk-5.6/libvtkFiltering.so.5.6 is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/ > lib/vtk-5.6/libvtksqlite.so.5.6 is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/ > lib/vtk-5.6/libvtkGraphics.so.5.6 is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/ > lib/vtk-5.6/libvtkHybridTCL.so.5.6 is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkproj4.so.5.6 > is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkIO.so.5.6 > is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/ > lib/vtk-5.6/libvtklibxml2.so.5.6 is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/ > lib/vtk-5.6/libvtkDICOMParser.so.5.6 is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/ > lib/vtk-5.6/libvtkGenericFilteringTCL.so.5.6 is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/ > lib/vtk-5.6/libvtkImaging.so.5.6 is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/ > lib/vtk-5.6/libvtkVolumeRenderingTCL.so.5.6 is not a symbolic link > /sbin/ldconfig: /opt/ebsofts/Core/FreeSurfer/5.3.0-centos6_x86_64/lib/vtk/ > lib/vtk-5.6/libMapReduceMPI.so.5.6 is not a symbolic link > > > Thanks for your help!! > > Markus > > 2017-09-15 17:49 GMT+02:00 Hoopes, Andrew <AHOOPES(a)mgh.harvard.edu<mailto: > AHOOPES(a)mgh.harvard.edu>>: > Hi Markus, > > What is the output when you run the following: (this will list libraries > you have access to) > > /sbin/ldconfig -N -v $(sed 's/:/ /' <<< $LD_LIBRARY_PATH) | grep > libvtkverdict.so > > best, > Andrew > > On Sep 15, 2017, at 3:33 AM, Markus Gschwind <markus.gschwind(a)gmail.com< > mailto:markus.gschwind@gmail.com>> wrote: > > Hi experts, > > I am installing freeusrfer on our cluster which is running Centos6. > > [gschwind@login1 ~]$ uname -a > Linux login1.cluster 2.6.32-696.1.1.el6.x86_64 #1 SMP Tue Apr 11 17:13:24 > UTC 2017 x86_64 x86_64 x86_64 GNU/Linux > > > Freeview aborts without any other complaint. > > [gschwind@login1 ~]$ freeview > Abort > > When running freeview.bin it complains about a libraries error: > > [gschwind@login1 ~]$ freeview.bin > freeview.bin: error while loading shared libraries: libvtkverdict.so.5.6: > cannot open shared object file: No such file or directory > > I searched the archives and found this info to be given, > > [gschwind@login1 ~]$ ls -l $FREESURFER_HOME/lib/vtk/lib/ > vtk-5.6/*libvtkverdict* > -rwxr-xr-x 1 sagon unige 189017 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ > 5.3.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkverdict.so > -rwxr-xr-x 1 sagon unige 189017 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ > 5.3.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkverdict.so.5.6 > -rwxr-xr-x 1 sagon unige 189017 Aug 17 2010 /opt/ebsofts/Core/FreeSurfer/ > 5.3.0-centos6_x86_64/lib/vtk/lib/vtk-5.6/libvtkverdict.so.5.6.0 > > > I then integrated this into bashrc > > export LD_LIBRARY_PATH=$FREESURFER_HOME/lib/vtk/lib/vtk-5.6 > > however, the problem persists. > > Any help is highly appreciated! > > Thanks you! > Markus > _______________________________________________ > Freesurfer mailing list > Freesurfer(a)nmr.mgh.harvard.edu<mailto:Freesurfer@nmr.mgh.harvard.edu> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > _______________________________________________ > Freesurfer mailing list > Freesurfer(a)nmr.mgh.harvard.edu<mailto:Freesurfer@nmr.mgh.harvard.edu> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > 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. > > > _______________________________________________ > Freesurfer mailing list > Freesurfer(a)nmr.mgh.harvard.edu<mailto:Freesurfer@nmr.mgh.harvard.edu> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > _______________________________________________ > Freesurfer mailing list > Freesurfer(a)nmr.mgh.harvard.edu<mailto:Freesurfer@nmr.mgh.harvard.edu> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > > > 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. > > > _______________________________________________ > Freesurfer mailing list > Freesurfer(a)nmr.mgh.harvard.edu<mailto:Freesurfer@nmr.mgh.harvard.edu> > https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer > >

1 0

TRACULA trac-all prep error
by Fred Sampedro 21 Sep '17

21 Sep '17

Dear TRACULA users, I'm trying to preprocess a DTI subject in TRACULA which has an already reconed-all error-free T1. I followed the tutorial, but trac-all -prep exited with errors very fast. Please find attached the log and error files, and the dmrirc. Also bvals and bvecs (were obtained from dcm2nii). The raw dti.nii.gz has 16 volumes, the first being b0 and then 15 directions. Any ideas on what could be happening would be much appreciated, Thanks a lot in advance, Fred-

1 0

Fs 6
by John Papatriantafyllou 21 Sep '17

21 Sep '17

dear FS experts, is there any tutorial to install FS 6 under windows 10? John

2 1

Matlab(?) failure in selxavg3-sess
by Yagmur Ozdemir 19 20 Sep '17

20 Sep '17

Hello freesurfer experts, When I run the selxavg3-sess command (for retinotopy) , the command exits with this "fast_selxavg3b('/mnt/c/Users/yagmuridil/Desktop/freesurfer/Project/Sess01/bold/rtopy.self.lh/sxa3.config.txt') if(~fast_fileexists('/tmp/selxavg3-sess-3166.ok')); quit; end" and then gives a "Matlab: Command not found" error. Can anyone help me troubleshoot this? I initially thought there was a problem with the system recognizing the Matlab in my computer, I tried to export a Matlab home, and tried to follow the steps here https://www.mail-archive.com/freesurfer@nmr.mgh.harvard.edu/msg05046.html but my ~/matlab folder doesn't have a startup.m file. >>1/1 /mnt/c/Users/yagmuridil/Desktop/freesurfer/Project/Sess01 Çrş Eyl 20 16:17:28 DST 2017 anadir = /mnt/c/Users/yagmuridil/Desktop/freesurfer/Project/Sess01/bold/rtopy.self.lh DoGLMFit = 1 DoContrasts = 1 UpdateNeeded = 1 Sess01 Update needed /mnt/c/Users/yagmuridil/Desktop/freesurfer/Project/Sess01/bold/rtopy.self.lh/sxa3.config.txt MLF is /tmp/selxavg3-sess-3166.m ------------------------------------------ % Çrş Eyl 20 16:17:26 DST 2017 % /mnt/c/Users/yagmuridil/Desktop/freesurfer/Project % rtopy.self.lh which fast_selxavg3 which fast_ldanaflac which MRIread fast_selxavg3b('/mnt/c/Users/yagmuridil/Desktop/freesurfer/Project/Sess01/bold/rtopy.self.lh/sxa3.config.txt') if(~fast_fileexists('/tmp/selxavg3-sess-3166.ok')); quit; end %-------------------------------- quit; ------------------------------------------ ------------------------------------------ ------- matlab output -------------------- matlab: Command not found. ------------------------------------------ ERROR: fast_selxavg3() failed\n Thank you, Idil

2 3

Cornell Weill is hiring new faculty in MR
by Bruce Fischl 20 Sep '17

20 Sep '17

FYI ---------- Forwarded message ---------- Date: Wed, 20 Sep 2017 16:53:34 +0000 From: Mert Sabuncu <msabuncu(a)cornell.edu> To: Bruce Fischl <fischl(a)nmr.mgh.harvard.edu> Subject: Cornell Weill is hiring new faculty in MR Hi Bruce, Can you forward to folks? Thx! https://www.ismrm.org/jobs/j06225.pdf

1 0

Strange looking dtifit_FA.nii.gz in FreeView
by Linnea Marie Dramdal Borg 20 Sep '17

20 Sep '17

Hi, We have run TRACULA on a couple hundred subjects and the quality control shows that most of them are OK, but in a few subjects the dtifit_FA.nii.gz images look strange in FreeView. The image intensities appear reversed in FreeView (see freeview_T207_dtifit_FA.nii.gz.png) but look normal in Fslview (see Fslview_T207_dtifit_FA.nii.gz.png). T205 is an example of a subject that looks normal also in FreeView (see fslview-freeview_T205_dtifit_FA.nii.gz.png), as most of our subjects' dtifit_FA images do. 207's dwi_orig image looks fine in FreeView (see freeview_T207_dwi_orig.nii.gz.png) as do all its L1,L2,L3,V1,V2,V3 etc. images. I'm puzzled as to what has happened here. Since the image looks fine in Fslview I'm inclined to think this is a FreeView issue? Thank you, Linnea Marie

2 3

Freeview Strange Behavior
by Torrado Carvajal, Angel 20 Sep '17

20 Sep '17

Good morning, We have been experiencing a weird behavior in Freeview when loading non local images. For example, if I try to load images located in simba or mrs from nemo, I get something like the attached screenshot. If I copy the file locally, I don't see this behavior. Marco also tried on his computer, replicating the same strange behavior. Any ideas on why this is happening? Thank you very much! Best, -- Angel Torrado-Carvajal Postdoctoral Research Fellow Pain Neuroimaging Laboratory MGH/HST Athinoula A. Martinos Center for Biomedical Imaging Building 149, Room 1101, 13th Street, Charlestown, MA 02129 USA atorradocarvajal(a)mgh.harvard.edu | www.nmr.mgh.harvard.edu | @MGHMartinos

2 1

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Freesurfer September 2017