AFNI Message Board

History of AFNI updates  

|
January 27, 2021 08:59AM
Hello,afni experts.When I use 3dICC to computes whole-brain voxel-wise ICC.There is a problem as shown below:
++++++++++++++++++++++++++++++++++++++++++++++++++++
***** Summary information of data structure *****
4 subjects : chen duan he yi
100 response values
5 levels for factor taste : bitter salty sour sweet umami
5 levels for factor session : five four one three two
100 levels for factor Tstat : chen_11_21_final_REML_MNI.nii[1] chen_11_21_final_REML_MNI.nii[10] chen_11_21_final_REML_MNI.nii[13] chen_11_21_final_REML_MNI.nii[4] chen_11_21_final_REML_MNI.nii[7] chen_11_26_final_REML_MNI.nii[1] chen_11_26_final_REML_MNI.nii[10] chen_11_26_final_REML_MNI.nii[13] chen_11_26_final_REML_MNI.nii[4] chen_11_26_final_REML_MNI.nii[7] chen_11_27_final_REML_MNI.nii[1] chen_11_27_final_REML_MNI.nii[10] chen_11_27_final_REML_MNI.nii[13] chen_11_27_final_REML_MNI.nii[4] chen_11_27_final_REML_MNI.nii[7] chen_12_1_final_REML_MNI.nii[1] chen_12_1_final_REML_MNI.nii[10] chen_12_1_final_REML_MNI.nii[13] chen_12_1_final_REML_MNI.nii[4] chen_12_1_final_REML_MNI.nii[7] chen_12_6_final_REML_MNI.nii[1] chen_12_6_final_REML_MNI.nii[10] chen_12_6_final_REML_MNI.nii[13] chen_12_6_final_REML_MNI.nii[4] chen_12_6_final_REML_MNI.nii[7] duan_01_01_final_REML_MNI.nii[1] duan_01_01_final_REML_MNI.nii[10] duan_01_01_final_REML_MNI.nii[13] duan_01_01_final_REML_MNI.nii[4] duan_01_01_final_REML_MNI.nii[7] duan_01_02_final_REML_MNI.nii[1] duan_01_02_final_REML_MNI.nii[10] duan_01_02_final_REML_MNI.nii[13] duan_01_02_final_REML_MNI.nii[4] duan_01_02_final_REML_MNI.nii[7] duan_01_03_final_REML_MNI.nii[1] duan_01_03_final_REML_MNI.nii[10] duan_01_03_final_REML_MNI.nii[13] duan_01_03_final_REML_MNI.nii[4] duan_01_03_final_REML_MNI.nii[7] duan_01_07_final_REML_MNI.nii[1] duan_01_07_final_REML_MNI.nii[10] duan_01_07_final_REML_MNI.nii[13] duan_01_07_final_REML_MNI.nii[4] duan_01_07_final_REML_MNI.nii[7] duan_01_10_final_REML_MNI.nii[1] duan_01_10_final_REML_MNI.nii[10] duan_01_10_final_REML_MNI.nii[13] duan_01_10_final_REML_MNI.nii[4] duan_01_10_final_REML_MNI.nii[7] he_00_17_final_REML_MNI.nii[1] he_00_17_final_REML_MNI.nii[10] he_00_17_final_REML_MNI.nii[13] he_00_17_final_REML_MNI.nii[4] he_00_17_final_REML_MNI.nii[7] he_00_22_final_REML_MNI.nii[1] he_00_22_final_REML_MNI.nii[10] he_00_22_final_REML_MNI.nii[13] he_00_22_final_REML_MNI.nii[4] he_00_22_final_REML_MNI.nii[7] he_01_03_final_REML_MNI.nii[1] he_01_03_final_REML_MNI.nii[10] he_01_03_final_REML_MNI.nii[13] he_01_03_final_REML_MNI.nii[4] he_01_03_final_REML_MNI.nii[7] he_01_08_final_REML_MNI.nii[1] he_01_08_final_REML_MNI.nii[10] he_01_08_final_REML_MNI.nii[13] he_01_08_final_REML_MNI.nii[4] he_01_08_final_REML_MNI.nii[7] he_01_17_final_REML_MNI.nii[1] he_01_17_final_REML_MNI.nii[10] he_01_17_final_REML_MNI.nii[13] he_01_17_final_REML_MNI.nii[4] he_01_17_final_REML_MNI.nii[7] yi_11_12_final_REML_MNI.nii[1] yi_11_12_final_REML_MNI.nii[10] yi_11_12_final_REML_MNI.nii[13] yi_11_12_final_REML_MNI.nii[4] yi_11_12_final_REML_MNI.nii[7] yi_11_16_final_REML_MNI.nii[1] yi_11_16_final_REML_MNI.nii[10] yi_11_16_final_REML_MNI.nii[13] yi_11_16_final_REML_MNI.nii[4] yi_11_16_final_REML_MNI.nii[7] yi_11_23_final_REML_MNI.nii[1] yi_11_23_final_REML_MNI.nii[10] yi_11_23_final_REML_MNI.nii[13] yi_11_23_final_REML_MNI.nii[4] yi_11_23_final_REML_MNI.nii[7] yi_12_3_final_REML_MNI.nii[1] yi_12_3_final_REML_MNI.nii[10] yi_12_3_final_REML_MNI.nii[13] yi_12_3_final_REML_MNI.nii[4] yi_12_3_final_REML_MNI.nii[7] yi_12_8_final_REML_MNI.nii[1] yi_12_8_final_REML_MNI.nii[10] yi_12_8_final_REML_MNI.nii[13] yi_12_8_final_REML_MNI.nii[4] yi_12_8_final_REML_MNI.nii[7]

Contingency tables of subject distributions among the categorical variables:

***** End of data structure information *****
++++++++++++++++++++++++++++++++++++++++++++++++++++

Reading input files now...

Reading input files for effect estimates: Done!

Reading input files for tStat: Done!

Error in FUN(array(newX[, i], d.call, dn.call), ...) :
object 'Mask' not found
Calls: array -> apply -> FUN
Execution halted

and I have confirmed the mask file is right,What surprised me is that when I delete the tFile in Data table ,the code run well,but I still want to add the t stats to analysis.the code I ran as shown below:
#!/bin/bash
test=(`cat subject.txt`)
3dICC -prefix test_run/ICC3_allrun111 -jobs 12 \
-mask all_rigid_mask.Pilot1+tlrc \
-model '1+(1|taste)+(1|session)+(1|Subj)' \
-Subj 'subject' \
-tStat 'tFile' \
-dataTable \
subject taste session tFile InputFile \
chen bitter one ${test[0]}[1] ${test[0]}[0] \
chen salty one ${test[0]}[4] ${test[0]}[3] \
chen sour one ${test[0]}[7] ${test[0]}[6] \
chen sweet one ${test[0]}[10] ${test[0]}[9] \
chen umami one ${test[0]}[13] ${test[0]}[12] \
chen bitter two ${test[1]}[1] ${test[1]}[0] \
chen salty two ${test[1]}[4] ${test[1]}[3] \
chen sour two ${test[1]}[7] ${test[1]}[6] \
chen sweet two ${test[1]}[10] ${test[1]}[9] \
chen umami two ${test[1]}[13] ${test[1]}[12] \
chen bitter three ${test[2]}[1] ${test[2]}[0] \
chen salty three ${test[2]}[4] ${test[2]}[3] \
chen sour three ${test[2]}[7] ${test[2]}[6] \
chen sweet three ${test[2]}[10] ${test[2]}[9] \
chen umami three ${test[2]}[13] ${test[2]}[12] \
chen bitter four ${test[3]}[1] ${test[3]}[0] \
chen salty four ${test[3]}[4] ${test[3]}[3] \
chen sour four ${test[3]}[7] ${test[3]}[6] \
chen sweet four ${test[3]}[10] ${test[3]}[9] \
chen umami four ${test[3]}[13] ${test[3]}[12] \
chen bitter five ${test[4]}[1] ${test[4]}[0] \
chen salty five ${test[4]}[4] ${test[4]}[3] \
chen sour five ${test[4]}[7] ${test[4]}[6] \
chen sweet five ${test[4]}[10] ${test[4]}[9]
Subject Author Posted

Error in FUN(array(newX[, i], d.call, dn.call), ...) : object 'Mask' not found when use 3dICC to computes whole-brain voxel-wise ICC

zdlu January 27, 2021 08:59AM

Re: Error in FUN(array(newX[, i], d.call, dn.call), ...) : object 'Mask' not found when use 3dICC to computes whole-brain voxel-wise ICC

Gang January 27, 2021 09:56AM

Re: Error in FUN(array(newX[, i], d.call, dn.call), ...) : object 'Mask' not found when use 3dICC to computes whole-brain voxel-wise ICC

zdlu January 27, 2021 09:29PM

Re: Error in FUN(array(newX[, i], d.call, dn.call), ...) : object 'Mask' not found when use 3dICC to computes whole-brain voxel-wise ICC

Gang January 28, 2021 08:59PM

Re: Error in FUN(array(newX[, i], d.call, dn.call), ...) : object 'Mask' not found when use 3dICC to computes whole-brain voxel-wise ICC

zdlu June 15, 2021 11:11PM

Re: Error in FUN(array(newX[, i], d.call, dn.call), ...) : object 'Mask' not found when use 3dICC to computes whole-brain voxel-wise ICC

Gang June 16, 2021 03:49PM



Sorry, only registered users may post in this forum.

Click here to login