Hi all, It seems it's reading the input as if having 59412 subjects, when the design matrix has only 6 rows. If the -transposedata doesn't work, I'd kindly ask if you could send the file then.
Sorry for the issue. All the best, Anderson On 21 April 2016 at 01:42, Glasser, Matthew <[email protected]> wrote: > Perhaps Anderson can comment more specifically on this error. As I recall > some I/O issues with CIFTI in PALM were resolved a while back > > Matt. > > On 4/20/16, 9:39 AM, "[email protected] on behalf of > Donna Dierker" <[email protected] on behalf of > [email protected]> wrote: > > >Hi Jarek, > > > >Using palm's -transposedata is worth trying, but I had to use wb_command > >-cifti-separate to peel off left and right hems (or subcortical nifti) > >before input to PALM. Maybe that is not needed anymore. > > > >Donna > > > > > >On Apr 20, 2016, at 4:37 AM, Jarek Rokicki <[email protected]> > >wrote: > > > >> Dear hcp-Experts, > >> > >> I tried to find if there are significant differences in the myelination > >>in two groups of subjects using PALM. Therefore after processing files > >>I've merged them using wb_command -cifti-merge > >> > >> File looks like this: > >> wb_command -file-information output_32k_myelin.dscalar.nii > >> Name: output_32k_myelin.dscalar.nii > >> Type: Connectivity - Dense Scalar > >> Structure: CortexLeft CortexRight > >> Data Size: 1.43 Megabytes > >> Maps to Surface: true > >> Maps to Volume: false > >> Maps with LabelTable: false > >> Maps with Palette: true > >> All Map Palettes Equal: true > >> Map Interval Units: NIFTI_UNITS_UNKNOWN > >> Number of Maps: 6 > >> Number of Rows: 59412 > >> Number of Columns: 6 > >> Volume Dim[0]: 0 > >> Volume Dim[1]: 0 > >> Volume Dim[2]: 0 > >> Palette Type: Map (Unique for each map) > >> CIFTI Dim[0]: 6 > >> CIFTI Dim[1]: 59412 > >> ALONG_ROW map type: SCALARS > >> ALONG_COLUMN map type: BRAIN_MODELS > >> Has Volume Data: false > >> CortexLeft: 29696 out of 32492 vertices > >> CortexRight: 29716 out of 32492 vertices > >> > >> But when i run it with palm i get following error: > >> > >> Reading input 1/1: output_32k_myelin.dscalar.nii > >> Reading design matrix and contrasts. > >> error: The number of rows in the design matrix does > >> not match the number of observations in the data. > >> - Rows in the matrix: 6 > >> - Observations in the data: 59412 > >> > >> So my question is there a way to make palm see that subjects are in > >>CIFTI Dim[0] rather than 1. Alternatively is there any other way to > >>assess differences? > >> > >> wb_command. Version: 1.1.1 > >> palm. Version: alpha83 > >> > >> > >> > >> Thank you for your answers in advance. > >> > >> 宜しくお願い致します。 > >> > >> Sincerely, > >> Jarek Rokicki, Ph.D. > >> > >> Integrative Brain Imaging Center (IBIC) > >> National Center of Neurology and Psychiatry (NCNP) > >> 4-1-1 Ogawahigashi-chyo, Kodaira, > >> Tokyo 187-8551 Japan > >> > >> TEL: +81-80-6628-5709 > >> > >> 国立精神・神経医療研究センター > >> 脳病態統合イメージングセンター(IBIC) > >> 臨床脳画像研究部 画像情報解析研究室 > >> 〒187-8551 東京都小平市小川東町4-1-1 > >> > >> > >> > >> > >> _______________________________________________ > >> HCP-Users mailing list > >> [email protected] > >> http://lists.humanconnectome.org/mailman/listinfo/hcp-users > >> > > > > > >_______________________________________________ > >HCP-Users mailing list > >[email protected] > >http://lists.humanconnectome.org/mailman/listinfo/hcp-users > > > ________________________________ > 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 [email protected] http://lists.humanconnectome.org/mailman/listinfo/hcp-users
