Thank you, I was using a bad input file. The command works now.

for -cifti-label-import however, I am no sure how the label file is supposed to 
look. I get a malformed error:

ERROR: label list file is malformed for entry #1: test 255 255 255 255

I have 4 cortical and 1 subcortical ROIs which are colored differently on 
viewing, but the cifti file contains only 1 map.

Ultimately I’d like to be able to identify and extract beta weights from each.

Thank you,
Michael

On Sep 20, 2016, at 2:26 PM, Glasser, Matthew 
<glass...@wustl.edu<mailto:glass...@wustl.edu>> wrote:

What does the input data look like?

Peace,

Matt.

From: "Michael F.W. Dreyfuss" 
<mid2...@med.cornell.edu<mailto:mid2...@med.cornell.edu>>
Date: Tuesday, September 20, 2016 at 1:22 PM
To: Matt Glasser <glass...@wustl.edu<mailto:glass...@wustl.edu>>
Cc: "Michael F.W. Dreyfuss" 
<mid2...@med.cornell.edu<mailto:mid2...@med.cornell.edu>>, Timothy Coalson 
<tsc...@mst.edu<mailto:tsc...@mst.edu>>, 
"hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>" 
<hcp-users@humanconnectome.org<mailto:hcp-users@humanconnectome.org>>
Subject: Re: [HCP-Users] ROIs and Betas from Cifti Data

OK, I tried this:

wb_command -cifti-find-clusters 
FoodGo_HCP_mesh_TFCE_palm/FoodGo_results_merged_tfce_tstat_fwep.dscalar.nii 0 0 
0 0 COLUMN FoodGo_results_merged_tfce_tstat_fwep_ROIs.dscalar.nii -left-surface 
HCP_S900_GroupAvg_v1/S900.L.midthickness_MSMAll.32k_fs_LR.surf.gii 
-right-surface 
HCP_S900_GroupAvg_v1/S900.R.midthickness_MSMAll.32k_fs_LR.surf.gii

Where now I am using these 900 subject average files as templates. I though the 
-left-surface it was looking for was with the statistics run

The output of this is null, however. Nothing shows up on wb_view and 
-file-information gives:

Map   Minimum   Maximum    Mean   Sample Dev   % Positive   % Negative   
Inf/NaN   Map Name
  1     0.000     0.000   0.000        0.000        0.000        0.000         
0   #1

Am I doing something wrong still?

Thanks,
Michael


On Sep 20, 2016, at 1:59 PM, Glasser, Matthew 
<glass...@wustl.edu<mailto:glass...@wustl.edu>> wrote:

Presumably you have some of these if you have gotten this far?



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