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Dear experts,
To correct multiple comparisons on the surface I'm using fspalm. I know that this command internally transforms the design contrast and desing matrix from the Freesurfer format to the fsl format so that FSL-PALM understands the input.
When the freesurfer contrasts include only one line, I can run permutations with fspalm without errors. The problem arises when the contrast has two lines (e.g., when including a three-level factor like in the example "Contrast 4: group.effect.mtx" from the link https://secure-web.cisco.com/1zRPseSPjbEGgbMXbZRKYmGKkEKOP342L-FeUKM_km6ilBs...; or when including a two-way interaction between a dichotomic factor and two covariates of interest). You can see below the error. How can I solve this problem?
Thank you in advance.
Marina
**ERROR:**
Loading surface 1/1: /usr/local/freesurfer/subjects/amyloid74_thickness_average/surf/lh.white
Reading input 1/1: /usr/local/freesurfer/subjects/amyloid74_thickness_stats/smoothing/gaussians/lh.fsgd_subj_gauss003.mgh
Reading design matrix and contrasts.
Error using palm_vestread (line 56)
File not in the correct format: design.con
Error in palm_miscread (line 110)
[X.data,X.extra.PPH] = palm_vestread(X.filename);
Error in palm_takeargs (line 2111)
tmp = palm_miscread(opts.t{t},[],[],opts.precision);
Error in palm_core (line 33)
[opts,plm] = palm_takeargs(varargin{:});
Error in palm (line 81)
palm_core(varargin{:});