cache.th23.abs.pdf.dat              mc-z.abs.2.sig.cluster.summary mc-z.neg.3.sig.cluster.summary mc-z.pos.3.sig.cluster.summary
cache.th23.abs.sig.cluster.mgh      mc-z.abs.2.sig.masked.mgh       mc-z.neg.3.sig.masked.mgh       mc-z.pos.3.sig.masked.mgh
cache.th23.abs.sig.cluster.summary mc-z.abs.2.sig.ocn.annot        mc-z.neg.3.sig.ocn.annot        mc-z.pos.3.sig.ocn.annot
cache.th23.abs.sig.masked.mgh       mc-z.abs.2.sig.ocn.mgh          mc-z.neg.3.sig.ocn.mgh          mc-z.pos.3.sig.ocn.mgh
cache.th23.abs.sig.ocn.annot        mc-z.abs.2.sig.voxel.mgh        mc-z.neg.3.sig.voxel.mgh        mc-z.pos.3.sig.voxel.mgh
cache.th23.abs.sig.ocn.mgh          mc-z.abs.3.pdf.dat              mc-z.neg.3.y.ocn.dat            mc-z.pos.3.y.ocn.dat
cache.th23.abs.sig.voxel.mgh        mc-z.abs.3.sig.cluster.mgh      mc-z.neg.pdf.dat                mc-z.pos.pdf.dat
C.dat                               mc-z.abs.3.sig.cluster.summary mc-z.neg.sig.cluster.mgh        mc-z.pos.sig.cluster.mgh
cnr.mgh                             mc-z.abs.3.sig.masked.mgh       mc-z.neg.sig.cluster.summary    mc-z.pos.sig.cluster.summary
F.mgh                               mc-z.abs.3.sig.ocn.annot        mc-z.neg.sig.masked.mgh         mc-z.pos.sig.masked.mgh
gamma.mgh                           mc-z.abs.3.sig.ocn.mgh          mc-z.neg.sig.ocn.annot          mc-z.pos.sig.ocn.annot
gammavar.mgh                        mc-z.abs.3.sig.voxel.mgh        mc-z.neg.sig.ocn.mgh            mc-z.pos.sig.ocn.mgh
maxvox.dat                          mc-z.abs.3.y.ocn.dat            mc-z.neg.sig.voxel.mgh          mc-z.pos.sig.voxel.mgh
mc-z.abs.2.pdf.dat                  mc-z.neg.3.pdf.dat              mc-z.pos.3.pdf.dat              mc-z.pos.y.ocn.dat
mc-z.abs.2.sig.cluster.mgh          mc-z.neg.3.sig.cluster.mgh      mc-z.pos.3.sig.cluster.mgh      sig.mgh

Hi doug and others,

Thanks doug.

According this information https://surfer.nmr.mgh.harvard.edu/fswiki/FsTutorial/GroupAnalysis#ViewCSDFile, I try to find the csd files in the csd folder(I am not sure this is what you just told me). But there are the csd files as I run simulation with --bg option.

Also I try to find the csd files in the first contrast directory, but I think, maybe I am wrong, none of these is csd files that you suggest.

Doug, would you please describe it more detailly, as I am a new user for FS?

Thanks doug and others.

All the best.

Rujing Zha

2014-02-22

charujing123

发件人：Douglas Greve <greve@nmr.mgh.harvard.edu>

发送时间：2014-02-21 23:49

主题：Re: [Freesurfer] error in mri_glmfit-sim when using --bg and doss

收件人："freesurfer"<freesurfer@nmr.mgh.harvard.edu>

抄送：

When you actually run the simulation, it only runs it for the first contrast. The simulation is the same for all contrasts, so you can just copy the csd files from the first contrast to the others, then run mri_glmfit-sim with the --no-sim option
doug

On 2/21/14 5:47 AM, charujing123 wrote:

Hi FS experts,

I ran the mri_glmfit with DOSS, followed by the mri_glmfit-sim(running with --bg option). I have 4 contrasts, but only the first one has some files of corrected results(i.e. mc-z.neg.3.sig.cluster.summary). I donot know why. So I upload the log file in the attachment. However, previously I ran mri_glmfit by DODS, and mri_glmfit-sim with --bg option.All the contrasts have corrected results.

Thanks.

All the best.

Rujing Zha

2014-02-21

charujing123
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