afni.nimh.nih.gov

Hi,

I use the new -clustsim option of 3dttest++ recently.
I always meet the error message below.

++ t-test randomsign:sh: 1: Syntax error: Bad fd number
sh: 1: Syntax error: Bad fd number

Although the error message is displayed, the 3dttest++ continues and finally with results.

Is this a potential problem need further care?

The output information for the -clustsim section:

++ ================ Starting -clustsim calculations ================
+ ===== temporary files will have prefix TT.4sAVd179k2U =====
+ ===== running 4 -randomsign jobs (2501 iterations per job) =====
+ #0 jobs command:
3dttest++ -DAFNI_AUTOMATIC_FDR=NO -DAFNI_DONT_LOGFILE=YES -randomsign 2501 -nomeans -toz -no1sam -mask /media/sf_DataAna/tdcs_reana/group/AB/statfolder/ana/TT_mask_rs+tlrc -paired -setA TT.4sAVd179k2U.resid.nii'[0..31]' -setB TT.4sAVd179k2U.resid.nii'[32..$]' -prefix .//TT.4sAVd179k2U.000.nii
sh: 1: Syntax error: Bad fd number
++ 3dttest++: AFNI version=AFNI_16.2.06 (Jul 25 2016) [64-bit]
++ Authored by: Zhark++
++ 92165 voxels in -mask dataset
++ 2-sample test: '-AminusB' option is assumed
++ paired test: results will be SetA - SetB
++ loading input datasets
++ Memory usage now = 26,511,204 (27 million [mega])
++ t-test randomsign:sh: 1: Syntax error: Bad fd number
sh: 1: Syntax error: Bad fd number
0123456789.0123456789.0123456789.0123456789.0123456789.!
++ ---------- End of analyses -- freeing workspaces ----------
++ Memory usage now = 2,920,635,820 (2.9 billion [giga])
++ Output dataset .//TT.4sAVd179k2U.000.nii
+ paired test: results are SetA - SetB
+ ===== jobs have finished (596.01 s elapsed) =====
+ ===== starting 3dClustSim =====
3dClustSim -DAFNI_DONT_LOGFILE=YES -inset .//TT.4sAVd179k2U.???.nii -prefix TT.4sAVd179k2U.CSim -LOTS -both -nodec -cmd TT.4sAVd179k2U.CSim.cmd -mask /media/sf_DataAna/tdcs_reana/group/AB/statfolder/ana/TT_mask_rs+tlrc
++ 3dClustSim: AFNI version=AFNI_16.2.06 (Jul 25 2016) [64-bit]
++ Authored by: RW Cox and BD Ward
++ 92165 voxels in mask (31.58% of total)
+ loading -inset './/TT.4sAVd179k2U.000.nii' with 2501 volumes
++ -inset had 2501 volumes = new '-niter' value
++ Startup clock time = 13.2 s
++ Using 4 OpenMP threads
Simulating:0123456789.0123456789.0123456789.0123456789.01234567!
++ Clock time now = 71.2 s
++ Clock time now = 72.6 s
++ Command fragment to put cluster results into a dataset header;
+ (also echoed to file TT.4sAVd179k2U.CSim.cmd for your scripting pleasure)
+ Append the name of the datasets to be patched to this command:
3drefit -atrstring AFNI_CLUSTSIM_NN1_1sided file:TT.4sAVd179k2U.CSim.NN1_1sided.niml -atrstring AFNI_CLUSTSIM_MASK file:TT.4sAVd179k2U.CSim.mask -atrstring AFNI_CLUSTSIM_NN2_1sided file:TT.4sAVd179k2U.CSim.NN2_1sided.niml -atrstring AFNI_CLUSTSIM_NN3_1sided file:TT.4sAVd179k2U.CSim.NN3_1sided.niml -atrstring AFNI_CLUSTSIM_NN1_2sided file:TT.4sAVd179k2U.CSim.NN1_2sided.niml -atrstring AFNI_CLUSTSIM_NN2_2sided file:TT.4sAVd179k2U.CSim.NN2_2sided.niml -atrstring AFNI_CLUSTSIM_NN3_2sided file:TT.4sAVd179k2U.CSim.NN3_2sided.niml -atrstring AFNI_CLUSTSIM_NN1_bisided file:TT.4sAVd179k2U.CSim.NN1_bisided.niml -atrstring AFNI_CLUSTSIM_NN2_bisided file:TT.4sAVd179k2U.CSim.NN2_bisided.niml -atrstring AFNI_CLUSTSIM_NN3_bisided file:TT.4sAVd179k2U.CSim.NN3_bisided.niml
+ ===== 3drefit-ing 3dClustSim results into ./ana/groupttest_015+tlrc.HEAD =====
++ 3drefit: AFNI version=AFNI_16.2.06 (Jul 25 2016) [64-bit]
++ Authored by: RW Cox
++ Processing AFNI dataset ./ana/groupttest_015+tlrc.HEAD
++ applying attributes
++ 3drefit processed 1 datasets
+ ===== deleting temp files TT.4sAVd179k2U.*.nii TT.4sAVd179k2U.*.niml =====
+ =============== -clustsim work is finished ===============

Thanks a lot!

lzy