Hmm, there should have been a lot more terminal output than that.
Try this, delete the CSD files:
rm lh.rs6980093.thickness10.glmdir/csd/perm.th20.abs.j*-osgm.csd
Then re-run. If it fails, then send me the perm.th20.abs.j*-osgm.csd files
On 9/14/2020 2:58 PM, Meaghan Perdue wrote:
External Email - Use Caution
Hi Doug,
Here is the command:
mri_glmfit-sim --glmdir lh.rs6980093.thickness10.glmdir --perm 1000
2.0 abs --cwp 0.05 --2spaces --bg 4
And here is the output:
mri_glmfit simulation done 4.78645
mri_glmfit simulation done 4.806
mri_glmfit simulation done 4.81553
mri_glmfit simulation done 4.81997
mri_surfcluster --in
lh.rs6980093.thickness10.glmdir/rs6980093_thickness/sig.mgh --mask
lh.rs6980093.thickness10.glmdir/mask.mgh --cwsig
lh.rs6980093.thickness10.glmdir/rs6980093_thickness/perm.th20.abs.sig.cluster.mgh
--sum
lh.rs6980093.thickness10.glmdir/rs6980093_thickness/perm.th20.abs.sig.cluster.summary
--ocn
lh.rs6980093.thickness10.glmdir/rs6980093_thickness/perm.th20.abs.sig.ocn.mgh
--annot aparc --cwpvalthresh 0.05 --o
lh.rs6980093.thickness10.glmdir/rs6980093_thickness/perm.th20.abs.sig.masked.mgh
--no-fixmni --csd
lh.rs6980093.thickness10.glmdir/csd/perm.th20.abs.j001-rs6980093_thickness.csd
--csd
lh.rs6980093.thickness10.glmdir/csd/perm.th20.abs.j002-rs6980093_thickness.csd
--csd
lh.rs6980093.thickness10.glmdir/csd/perm.th20.abs.j003-rs6980093_thickness.csd
--csd
lh.rs6980093.thickness10.glmdir/csd/perm.th20.abs.j004-rs6980093_thickness.csd
--csdpdf
lh.rs6980093.thickness10.glmdir/rs6980093_thickness/perm.th20.abs.pdf.dat
--vwsig
lh.rs6980093.thickness10.glmdir/rs6980093_thickness/perm.th20.abs.sig.voxel.mgh
--vwsigmax
lh.rs6980093.thickness10.glmdir/rs6980093_thickness/perm.th20.abs.sig.voxel.max.dat
--oannot
lh.rs6980093.thickness10.glmdir/rs6980093_thickness/perm.th20.abs.sig.ocn.annot
--bonferroni 2 --surf white
ERROR: CSDmerge: CSDs have same seed
Thank you!
Meaghan
On Wed, Sep 9, 2020 at 4:28 PM Douglas N. Greve
<dgr...@mgh.harvard.edu <mailto:dgr...@mgh.harvard.edu>> wrote:
*Message sent from a system outside of UConn.*
please send the full command line and terminal output
On 9/9/2020 3:19 PM, Meaghan Perdue wrote:
External Email - Use Caution
Hello Freesurfer experts,
We're receiving the following error message when trying to run
mri_glmfit-sim:
ERROR: CSDmerge: CSDs have same seed
This only occurs when we try to run the permutation on the LH for
thickness. We've been able to run the simulation successfully on
LH surface area and RH thickness and area.
How can we troubleshoot this problem?
Thank you,
Meaghan Perdue
--
Meaghan Perdue
she | her | hers
PhD Student
Developmental Psychology
Neurobiology of Language
University of Connecticut
Bousfield A302
Visit my website <https://mvperdue16.wixsite.com/meaghanperdue>
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_______________________________________________
Freesurfer mailing list
Freesurfer@nmr.mgh.harvard.edu <mailto:Freesurfer@nmr.mgh.harvard.edu>
https://mail.nmr.mgh.harvard.edu/mailman/listinfo/freesurfer
--
Meaghan Perdue
she | her | hers
PhD Student
Developmental Psychology
Neurobiology of Language
University of Connecticut
Bousfield A302
Visit my website <https://mvperdue16.wixsite.com/meaghanperdue>
_______________________________________________
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
