[Freesurfer] label_child memory erro
Hi, I'm running freesurfer (version 0.9, 33y) and I'm trying to run the label_child script I found in the bin directory, however I'm getting the following error(where my subject directory is called 205): Command Line: label_child 205 Output: using gca /opt/freesurfer_alpha/average/talairach_children_tl_b.gca to label thin temporal lobe... using /nfs/raidzone/data/NL-GCS/subjects/freesurfer//205/mri/brain to mask final labeling... reading 1 input volumes... reading classifier array from /opt/freesurfer_alpha/average/talairach_children_b.gca... GCAread(/opt/freesurfer_alpha/average/talairach_children_b.gca): couldn't expand gcs to 286990032 Cannot allocate memory --- My computers' resources (from /proc/meminfo) are: MemTotal: 4148928 kB MemFree:871196 kB Can my computer handle running label_child? Am I just calling something incorrectly? Is there anything I could try to change in order to get label_child to run? Thanks, Helen. ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Re: [Freesurfer] label_child memory erro
Hi Helen, we should probably stop distributing that script as it's way old and not supported (the atlas it's trying to use is in a format we don't support anymore). What age subject are you trying to label? If it's 6 or so then you probably are fine using the normal labeling generated by recon-all. cheers, Bruce On Thu, 23 Feb 2006 [EMAIL PROTECTED] wrote: Hi, I'm running freesurfer (version 0.9, 33y) and I'm trying to run the label_child script I found in the bin directory, however I'm getting the following error(where my subject directory is called 205): Command Line: label_child 205 Output: using gca /opt/freesurfer_alpha/average/talairach_children_tl_b.gca to label thin temporal lobe... using /nfs/raidzone/data/NL-GCS/subjects/freesurfer//205/mri/brain to mask final labeling... reading 1 input volumes... reading classifier array from /opt/freesurfer_alpha/average/talairach_children_b.gca... GCAread(/opt/freesurfer_alpha/average/talairach_children_b.gca): couldn't expand gcs to 286990032 Cannot allocate memory --- My computers' resources (from /proc/meminfo) are: MemTotal: 4148928 kB MemFree:871196 kB Can my computer handle running label_child? Am I just calling something incorrectly? Is there anything I could try to change in order to get label_child to run? Thanks, Helen. ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
[Freesurfer] paint, mri_vol2surf, paint-sess
I tried painting to a surface created with the new recon-all (using paint or mri_vol2surf (version 1.22 2005/07/05)), and it seems that the surrfaces are not being read correctly (the data in the w file has the speckled appearance you get when the vertex numbers are wrong). I posted a message before about my fieldsign code not working on the new surfaces and Bruce Fischl said this about the different surfaces (i.e. orig, smoothwm, inflated, etc.): check the # of vertices etc... with mris_euler_number (or mris_info). Make sure they all are the same. The file sizes aren't necessarily the same any more as they contain additional info, but the # of vertices etc. should be invariant. So are paint and mri_vol2surf still supported under the current distribution of MGH FreeSurfer? Are there newer versions out there? Or is everyone using paint-sess these days? By the way, what was done to the format of the surfaces? What additional info do they contain? Is there documentation or posted code on how to read the new surfaces? ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
Re: [Freesurfer] mghWrite error
is the disk full? Do you have write permission? On Thu, 23 Feb 2006, Nguyen, Thang Q wrote: Hello all, I have a few scans I need to convert using mri_convert but I receive this error: writing to 2.mgh... mghWrite(2.mgh, -1): could not open file ERROR: failure writing 2.mgh I can convert other images from the same scanner, same subject, same header without any problems but the few that I have recently tried to convert have this issue. I can view the images in tkmedit so I don't believe there is an issue with the images themselves. What does this error mean and how can I override it? Thank you all for your input, Thang Nguyen Thang Nguyen Biomedical Informatics Research Network Psychiatry and Human Behavior - Brain Imaging Center University of California, Irvine ___ Freesurfer mailing list Freesurfer@nmr.mgh.harvard.edu https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
