Hi Michael, In the first case the option "-transposedata" should fix the problem. In the second case, with "-evperdat", it seems the dimensions of the input and of the voxelwise EV don't match.
Please, when quoting, send the full error message, including particularly those seemingly cryptical line numbers where the error happens. Without that I can't tell whether the issue is happening when loading the input file or the voxelwise regressor. Alternatively, you could also upload your files and I can try to see what is going on. You should have just received an automated email with instructions to upload. Thanks. All the best, Anderson On 12 September 2016 at 22:27, Michael F.W. Dreyfuss < mid2...@med.cornell.edu> wrote: > Thank you both. I am using palm (from palm-alpha98.tar.gz) for group > level analyses (i.e. 1 cope file per person). When I run the following > command, I get the error below: > > > palm $COPE_INPUTS -d $LevelThreeFEATDir/design.mat -t > $LevelThreeFEATDir/design.con -fdr -T -ise > > > The number of rows in the design matrix does > > not match the number of observations in the data. > > - Rows in the matrix: 41 > > - Observations in the data: 91282 > > > When I run it with the option -evperdat I get the error: > > > Index exceeds matrix dimensions. > > > There are 41 inputs and 41 under NumPoints, so I do not understand this > error > > > When I convert to dscalar.nii files, I get the same errors exactly. > > > Do you have any advice for how to make this work? Or are there examples > of palm with cifti files I could use for reference? > > > Thank you, > > Michael > > ------------------------------ > *From:* Burgess, Gregory <gburg...@wustl.edu> > *Sent:* Monday, September 12, 2016 2:50:41 PM > *To:* Michael F.W. Dreyfuss > *Cc:* hcp-users@humanconnectome.org > *Subject:* Re: [HCP-Users] PALM with cifti files > > Hi Michael, > > > > I just want to verify that you are trying to use PALM for “higher-level” > group analyses. PALM is not currently able to conduct “lower-level” > timeseries analyses. You currently need to use the HCP task fMRI pipelines > for that. > > > > If you are attempting group analyses, it might be helpful to know the > error messages that you are receiving. > > > > Thanks, > > --Greg > > > > ____________________________________________________________________ > > Greg Burgess, Ph.D. > > Staff Scientist, Human Connectome Project > > Washington University School of Medicine > > Department of Psychiatry > > Phone: 314-362-7864 > > Email: gburg...@wustl.edu > > > > > On Sep 12, 2016, at 1:40 PM, Glasser, Matthew <glass...@wustl.edu> > wrote: > > > > > > Do you have the latest version of PALM? Does it work if you convert the > files to dscalar? > > > > > > Peace, > > > > > > Matt. > > > > > > From: <hcp-users-boun...@humanconnectome.org> on behalf of "Michael > F.W. Dreyfuss" <mid2...@med.cornell.edu> > > > Date: Monday, September 12, 2016 at 1:15 PM > > > To: "hcp-users@humanconnectome.org" <hcp-users@humanconnectome.org> > > > Subject: [HCP-Users] PALM with cifti files > > > > > > Hello, > > > > > > I am getting errors when I try to use palm with cifti files. Is there an > option or options that I need to use with palm for it to read dtseries.nii > files appropriately? Are there any examples of simple implementations of > palm on cifti type fMRI data (task based especially)? > > > > > > Thanks you, > > > Michael > > > _______________________________________________ > > > HCP-Users mailing list > > > HCP-Users@humanconnectome.org > > > https://urldefense.proofpoint.com/v2/url?u=http-3A__lists. > humanconnectome.org_mailman_listinfo_hcp-2Dusers&d=DQIGaQ& > c=lb62iw4YL4RFalcE2hQUQealT9-RXrryqt9KZX2qu2s&r=rPclmYysc_ > z1plf99IoNsmxWf1JolkKMmL6bXnYFSwg&m=U52h4SVaqZQW9xd_ > ehyzEayK7AV5JsdCjxyRJfAXbIc&s=pE7Az3W5HTpMATBQfUwSDI7gw_ > 07Sfbp3WZWtbJTt5A&e= > > > > > > The materials in this message are private and may contain Protected > Healthcare Information or other information of a sensitive nature. If you > are not the intended recipient, be advised that any unauthorized use, > disclosure, copying or the taking of any action in reliance on the contents > of this information is strictly prohibited. If you have received this email > in error, please immediately notify the sender via telephone or return mail. > > > _______________________________________________ > > > HCP-Users mailing list > > > HCP-Users@humanconnectome.org > > > https://urldefense.proofpoint.com/v2/url?u=http-3A__lists. > humanconnectome.org_mailman_listinfo_hcp-2Dusers&d=DQIGaQ& > c=lb62iw4YL4RFalcE2hQUQealT9-RXrryqt9KZX2qu2s&r=rPclmYysc_ > z1plf99IoNsmxWf1JolkKMmL6bXnYFSwg&m=U52h4SVaqZQW9xd_ > ehyzEayK7AV5JsdCjxyRJfAXbIc&s=pE7Az3W5HTpMATBQfUwSDI7gw_ > 07Sfbp3WZWtbJTt5A&e= > > > > > > ________________________________ > > The materials in this message are private and may contain Protected > Healthcare Information or other information of a sensitive nature. If you > are not the intended recipient, be advised that any unauthorized use, > disclosure, copying or the taking of any action in reliance on the contents > of this information is strictly prohibited. If you have received this email > in error, please immediately notify the sender via telephone or return mail. > > _______________________________________________ > 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
