Sounds like it made a temporary file for some reason, but the temporary file was corrupt somehow (found a similar error on the freesurfer list). You should probably ask the freesurfer list what the problem might be.
Tim On Wed, Oct 12, 2016 at 12:27 PM, Francesco Sammartino < francesco.sammartino....@gmail.com> wrote: > Thank you a lot. > > I found a problem in the last step. When I convert files from gii to annot > using mris_convert : I run mris_convert --annot left.fsaverage164.label.gii > fs_L-to-fs_LR_fsaverage.L_LR.spherical_std.164k_fs_L.surf.gii > lh.HCP-MMP1.annot > > and I get a lot of errors like 'Invalid argument > freadFloat: fread failed > Invalid argument > mrisFindNeighbors: ../../../cortical/fs_L-to-fs_ > LR_fsaverage.L_LR.spherical_std.164k_fs_L.surf.gii.1: face[1].v[0] = 0, > but face 1 not in vertex 0 face list > > Invalid argument > Segmentation fault (core dumped)' in the shell. > > Any suggestions? > > Thanks again > > > > *Francesco Sammartino MD* > > On Wed, Oct 12, 2016 at 11:18 AM, Elam, Jennifer <e...@wustl.edu> wrote: > >> Hi Francesco, >> >> This has been discussed quite a bit on the list. Please see >> https://www.mail-archive.com/hcp-users@humanconnectome.org/msg03000.html >> and other messages on the thread, especially the discussion of the price >> you pay in terms of spatial fidelity when you convert from surface to >> volume. >> >> >> Also see this article “The Human Connectome Project’s neuroimaging >> approach” <http://www.nature.com/neuro/journal/v19/n9/full/nn.4361.html> >> published in Nature Neuroscience in late August 2016 that discusses this >> issue. >> >> >> Note that FSL is currently working on getting CIFTI compatibility in >> their next release, which should be coming out soon. >> >> >> Best, >> >> Jenn >> >> >> Jennifer Elam, Ph.D. >> Scientific Outreach, Human Connectome Project >> Washington University School of Medicine >> Department of Neuroscience, Box 8108 >> 660 South Euclid Avenue >> St. Louis, MO 63110 >> 314-362-9387 >> e...@wustl.edu >> www.humanconnectome.org >> >> ------------------------------ >> *From:* hcp-users-boun...@humanconnectome.org < >> hcp-users-boun...@humanconnectome.org> on behalf of Francesco Sammartino >> <francesco.sammartino....@gmail.com> >> *Sent:* Wednesday, October 12, 2016 8:59:54 AM >> *To:* hcp-users@humanconnectome.org >> *Subject:* [HCP-Users] Extract 137 RSN networks - Glasser et al. - >> Nature 2016 >> >> Hi >> >> We are aiming to integrate the new high resolution cortical parcellation >> and the 137 resting state networks into our probabilistic tractography (FSL >> based) pipeline. >> >> Could you please tell me how should I convert to nifti labelmaps the >> content of the file Q1-Q6_RelatedParcellation210.i >> ndividual_RSNs_d137_WR_norm_MSMAll_2_d41_WRN_DeDrift.32k_fs_LR.dscalar.nii >> or direct me to a tutorial/howto on how to project those parcellation >> information to a nifti volume? >> >> We are heavily based on FSL and it would be great to convert all the >> files in its format. >> >> Thanks and sorry for the newbie question. >> >> >> Francesco Sammartino >> >> _______________________________________________ >> HCP-Users mailing list >> HCP-Users@humanconnectome.org >> http://lists.humanconnectome.org/mailman/listinfo/hcp-users >> > > _______________________________________________ > HCP-Users mailing list > HCP-Users@humanconnectome.org > http://lists.humanconnectome.org/mailman/listinfo/hcp-users > _______________________________________________ HCP-Users mailing list HCP-Users@humanconnectome.org http://lists.humanconnectome.org/mailman/listinfo/hcp-users