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April 05, 2021 02:02PM
Hello AFNI. I am running the following group comparison without an specific mask:
3dttest++ \
-prefix HighvsLowICG_noCov_noMask \
-prefix_clustsim HighvsLowICG_noCov_noMask \
-tempdir /scratch/global/lbohorquez/PCASL_analysis/results_noMask/temp \
-center SAME\
-Clustsim 24 \
-toz \
-setA HighICG \
-230 r_CBF_GMC_80.nii.gz \
-....
-setB LowICG \
-172 r_CBF_GMC_80.nii.gz \
- ....

It seems that the t-test runs but at the clustSim moment, something is failing, any suggestions of what am I doing wrong?

++ 3dttest++: AFNI version=AFNI_19.3.18 (Dec 27 2019) [64-bit]
++ Authored by: Zhark++
++ Number of -Clustsim threads set to 24
++ option -setA :: processing as LONG form (label label dset label dset ...)
++ have 21 volumes corresponding to option '-setA'
++ option -setB :: processing as LONG form (label label dset label dset ...)
++ have 18 volumes corresponding to option '-setB'
++ no mask ==> processing all 902629 voxels
++ 2-sample test: '-AminusB' option is assumed
++ 2-sample test: results will be HighICG - LowICG
++ loading -setA datasets
^[[7m*+ WARNING:^[[0m 3dttest++ -setA :: 790863 vectors are constant
++ loading -setB datasets
^[[7m*+ WARNING:^[[0m 3dttest++ -setB :: 790863 vectors are constant
++ Memory usage now = 321,648,610 (322 million)
++ t-testing:0123456789.0123456789.0123456789.0123456789.0123456789.!
+ skipped 793799 voxels completely for having constant data
++ ---------- End of analyses -- freeing workspaces ----------
++ Memory usage now = 166,374,694 (166 million)
++ Creating FDR curves in output dataset
^[[7m*+ WARNING:^[[0m Smallest FDR q [1 HighICG-LowICG_Zscr] = 0.164516 ==> few true single voxel detections
++ Smallest FDR q [3 HighICG_Zscr] = 1.02322e-14
++ Smallest FDR q [5 LowICG_Zscr] = 3.17844e-14
+ Added 3 FDR curves to dataset
++ Output dataset ./HighvsLowICG_noCov_noMask.resid.nii
+ 2-sample test: results are HighICG - LowICG
++ ================ Starting -Clustsim calculations ================
+ === temporary files will have prefix HighvsLowICG_noCov_noMask ===
+ === running 24 -randomsign jobs (417 iterations per job) ===
++ 3dttest++: AFNI version=AFNI_19.3.18 (Dec 27 2019) [64-bit]
++ Authored by: Zhark++
++ option -setA :: processing as SHORT form (all values are datasets)
++ have 21 volumes corresponding to option '-setA'
++ option -setB :: processing as SHORT form (all values are datasets)
++ have 18 volumes corresponding to option '-setB'
++ random seeds are 416376842 730536107
++ no mask ==> processing all 902629 voxels
++ 2-sample test: '-AminusB' option is assumed
++ 2-sample test: results will be SetA - SetB
++ loading -setA datasets
^[[7m*+ WARNING:^[[0m 3dttest++ -setA :: 793799 vectors are constant
++ loading -setB datasets
^[[7m*+ WARNING:^[[0m 3dttest++ -setB :: 793799 vectors are constant
++ Memory usage now = 159,195,775 (159 million)
++ t-test randomsign/permute:0123456789.012sh: line 3: 87130 Killed 3dttest++ -DAFNI_AUTOMATIC_FDR=NO -DAFNI_DONT_LOGFILE=YES -randomsign 417 -nomeans -toz -seed 423043748 737203013 -no1sam -permute -setA HighvsLowICG_noCov_noMask.resid.nii'[0..20]' -setB HighvsLowICG_noCov_noMask.resid.nii'[21..$]' -prefix /scratch/global/lbohorquez/PCASL_analysis/results_noMask/temp/HighvsLowICG_noCov_noMask.0006.nii &>/dev/null
sh: line 3: 87143 Killed 3dttest++ -DAFNI_AUTOMATIC_FDR=NO -DAFNI_DONT_LOGFILE=YES -randomsign 417 -nomeans -toz -seed 427488352 741647617 -no1sam -permute -setA HighvsLowICG_noCov_noMask.resid.nii'[0..20]' -setB HighvsLowICG_noCov_noMask.resid.nii'[21..$]' -prefix /scratch/global/lbohorquez/PCASL_analysis/results_noMask/temp/HighvsLowICG_noCov_noMask.0010.nii &>/dev/null
.
.
.
+ 3dttest++ ===== simulation jobs have finished (7286.4 s elapsed)
+ 3dttest++ ===== starting 3dClustSim A: elapsed = 7291.2 s
++ 3dClustSim: AFNI version=AFNI_19.3.18 (Dec 27 2019) [64-bit]
++ Authored by: RW Cox and BD Ward
^[[7m** ERROR:^[[0m -inset '/scratch/global/lbohorquez/PCASL_analysis/results_noMask/temp/HighvsLowICG_noCov_noMask.0000.nii': failure to open dataset
^[[7m** ERROR:^[[0m -inset '/scratch/global/lbohorquez/PCASL_analysis/results_noMask/temp/HighvsLowICG_noCov_noMask.0001.nii': failure to open dataset
^[[7m** ERROR:^[[0m -inset '/scratch/global/lbohorquez/PCASL_analysis/results_noMask/temp/HighvsLowICG_noCov_noMask.0002.nii': failure to open dataset
^[[7m** ERROR:^[[0m -inset '/scratch/global/lbohorquez/PCASL_analysis/results_noMask/temp/HighvsLowICG_noCov_noMask.0004.nii': failure to open dataset
^[[7m** ERROR:^[[0m -inset '/scratch/global/lbohorquez/PCASL_analysis/results_noMask/temp/HighvsLowICG_noCov_noMask.0005.nii': failure to open dataset
^[[7m** ERROR:^[[0m -inset '/scratch/global/lbohorquez/PCASL_analysis/results_noMask/temp/HighvsLowICG_noCov_noMask.0006.nii': failure to open dataset
^[[7m** ERROR:^[[0m -inset '/scratch/global/lbohorquez/PCASL_analysis/results_noMask/temp/HighvsLowICG_noCov_noMask.0007.nii': failure to open dataset
^[[7m** ERROR:^[[0m -inset '/scratch/global/lbohorquez/PCASL_analysis/results_noMask/temp/HighvsLowICG_noCov_noMask.0008.nii': failure to open dataset
^[[7m** ERROR:^[[0m -inset '/scratch/global/lbohorquez/PCASL_analysis/results_noMask/temp/HighvsLowICG_noCov_noMask.0009.nii': failure to open dataset
^[[7m** ERROR:^[[0m -inset '/scratch/global/lbohorquez/PCASL_analysis/results_noMask/temp/HighvsLowICG_noCov_noMask.0010.nii': failure to open dataset
^[[7m** ERROR:^[[0m -inset '/scratch/global/lbohorquez/PCASL_analysis/results_noMask/temp/HighvsLowICG_noCov_noMask.0012.nii': failure to open dataset
^[[7m** ERROR:^[[0m -inset '/scratch/global/lbohorquez/PCASL_analysis/results_noMask/temp/HighvsLowICG_noCov_noMask.0014.nii': failure to open dataset
^[[7m** ERROR:^[[0m -inset '/scratch/global/lbohorquez/PCASL_analysis/results_noMask/temp/HighvsLowICG_noCov_noMask.0015.nii': failure to open dataset
^[[7m** ERROR:^[[0m -inset '/scratch/global/lbohorquez/PCASL_analysis/results_noMask/temp/HighvsLowICG_noCov_noMask.0016.nii': failure to open dataset
^[[7m** ERROR:^[[0m -inset '/scratch/global/lbohorquez/PCASL_analysis/results_noMask/temp/HighvsLowICG_noCov_noMask.0017.nii': failure to open dataset
^[[7m** ERROR:^[[0m -inset '/scratch/global/lbohorquez/PCASL_analysis/results_noMask/temp/HighvsLowICG_noCov_noMask.0018.nii': failure to open dataset
^[[7m** ERROR:^[[0m -inset '/scratch/global/lbohorquez/PCASL_analysis/results_noMask/temp/HighvsLowICG_noCov_noMask.0019.nii': failure to open dataset
^[[7m** ERROR:^[[0m -inset '/scratch/global/lbohorquez/PCASL_analysis/results_noMask/temp/HighvsLowICG_noCov_noMask.0020.nii': failure to open dataset
^[[7m** ERROR:^[[0m -inset '/scratch/global/lbohorquez/PCASL_analysis/results_noMask/temp/HighvsLowICG_noCov_noMask.0021.nii': failure to open dataset
^[[7m** FATAL ERROR:^[[0m can't continue after above -inset problems
** Program compile date = Dec 27 2019
^[[7m** FATAL ERROR:^[[0m ===== 3dClustSim command failed sad smiley(( =====
** Program compile date = Dec 27 2019
~
Subject Author Posted

3dttest++ clustSim error

LuisaBoh April 05, 2021 02:02PM

Re: 3dttest++ clustSim error

RWCox April 20, 2021 07:04PM



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