AFNI version info (afni -ver):
uname -a
Linux DESKTOP-RJJ49UB 4.4.0-19041-Microsoft #3996-Microsoft Thu Jan 18 16:36:00 PST 2024 x86_64 x86_64 x86_64 GNU/Linux
afni -ver
Precompiled binary linux_ubuntu_16_64: Apr 5 2024 (Version AFNI_24.1.01 'Publius Septimius Geta')
Paul,
We're attempting to get a correlation matrix to show the connectvity strengths between clusters of activated nodes in baseline that we identify during tasks. We would also like to do a seed-to-whole-brain analysis. Our specified ROIs are spheres with a radius of 3 in locations with activations. I'm getting errors with both techniques.
It would be great if you could direct us to a resource which demonstrates the entire process end-to-end as I have not been able to locate one.
Here are the details of what I have done:
I'm deleting all new files/directories created after each process, before attempting any processes. I am wondering if you might help me eliminate the errors, vailidate that these commands give me what I'm attempting to find (quality check), interpret my results in a meaningful way, and enlighten me on next steps for a seed-to-whole-brain process.
We have task and baseline data taken at the same time. Task data is used to ID the ROI i,j,k values, then these commands are run on baseline to ID them at resting.
All commands and output have been included below.
**First Approach - 3dUndump + 3dNetCorr**
Command Summary:
A.)
3dUndump -dimen 28 42 12 -prefix roi_1 ; 3dUndump -dimen 41 42 12 -prefix roi_2 ;3dUndump -dimen 26 55 12 -prefix roi_3;3dUndump -dimen 36 53 12 -prefix roi_4
B.)
3dNetCorr \
-inset 04_BASELINE+orig \
-in_rois roi_1+orig roi_2+orig roi_3+orig roi_4+orig \
-fish_z \
-prefix roi/out
**Second Approach - 3dCalc + 3dNetCorr**
Commamds:
A.)
x='04_BASELINE+orig' ;3dcalc -a ${x} -expr 'step(9-(x-28)*(x-28)-(y-42)*(y-42)-(z-12)*(z-12))' -prefix roi_1;3dcalc -a ${x} -expr 'step(9-(x-41)*(x-41)-(y-42)*(y-42)-(z-12)*(z-12))' -prefix roi_2;3dcalc -a ${x} -expr 'step(9-(x-26)*(x-26)-(y-55)*(y-55)-(z-12)*(z-12))' -prefix roi_3;3dcalc -a ${x} -expr 'step(9-(x-36)*(x-36)-(y-53)*(y-53)-(z-12)*(z-12))' -prefix roi_4
B.)
3dNetCorr \
-inset 04_BASELINE+orig \
-in_rois roi_1+orig roi_2+orig roi_3+orig roi_4+orig \
-fish_z \
-prefix roi/out
**---OUTPUT---**
**------First Approach------**
sandra@DESKTOP-RJJ49UB:~/data/Data/automation-test/6.2_test$ 3dUndump -dimen 28 42 12 -prefix roi_1 ; 3dUndump -dimen 41 42 12 -prefix roi_2 ;3dUndump -dimen 26 55 12 -prefix roi_3;3dUndump -dimen 36 53 12 -prefix roi_4
++ 3dUndump: AFNI version=AFNI_24.1.01 (Apr 5 2024) [64-bit]
*+ WARNING: No input files ==> creating empty dataset
++ Starting to fill via -ijk indexes
++ Total number of voxels filled = 0
++ Wrote out dataset ./roi_1+orig.BRIK
++ 3dUndump: AFNI version=AFNI_24.1.01 (Apr 5 2024) [64-bit]
*+ WARNING: No input files ==> creating empty dataset
++ Starting to fill via -ijk indexes
++ Total number of voxels filled = 0
++ Wrote out dataset ./roi_2+orig.BRIK
++ 3dUndump: AFNI version=AFNI_24.1.01 (Apr 5 2024) [64-bit]
*+ WARNING: No input files ==> creating empty dataset
++ Starting to fill via -ijk indexes
++ Total number of voxels filled = 0
++ Wrote out dataset ./roi_3+orig.BRIK
++ 3dUndump: AFNI version=AFNI_24.1.01 (Apr 5 2024) [64-bit]
*+ WARNING: No input files ==> creating empty dataset
++ Starting to fill via -ijk indexes
++ Total number of voxels filled = 0
++ Wrote out dataset ./roi_4+orig.BRIK
sandra@DESKTOP-RJJ49UB:~/data/Data/automation-test/6.2_test$ ls -latr |grep 'Apr 21'
-rw-r--r-- 1 sandra sandra 1988 Apr 21 12:12 roi_1+orig.HEAD
-rw-r--r-- 1 sandra sandra 159 Apr 21 12:12 roi_1+orig.BRIK.gz
-rw-r--r-- 1 sandra sandra 1988 Apr 21 12:12 roi_2+orig.HEAD
-rw-r--r-- 1 sandra sandra 216 Apr 21 12:12 roi_2+orig.BRIK.gz
-rw-r--r-- 1 sandra sandra 1988 Apr 21 12:12 roi_3+orig.HEAD
-rw-r--r-- 1 sandra sandra 185 Apr 21 12:12 roi_3+orig.BRIK.gz
-rw-r--r-- 1 sandra sandra 1988 Apr 21 12:12 roi_4+orig.HEAD
drwxr-xr-x 1 sandra sandra 4096 Apr 21 12:12 .
-rw-r--r-- 1 sandra sandra 235 Apr 21 12:12 roi_4+orig.BRIK.gz
sandra@DESKTOP-RJJ49UB:~/data/Data/automation-test/6.2_test$ 3dNetCorr \
> -inset 04_BASELINE+orig \
> -in_rois roi_1+orig roi_2+orig roi_3+orig roi_4+orig \
> -fish_z \
> -prefix roi/out
++ Reading in.
****** ERROR: Data sets of `-inset' and `in_rois' have different numbers of voxels per brik!****
sandra@DESKTOP-RJJ49UB:~/data/Data/automation-test/6.2_test$ ls -latr |grep 'Apr 21'
-rw-r--r-- 1 sandra sandra 1988 Apr 21 12:12 roi_1+orig.HEAD
-rw-r--r-- 1 sandra sandra 159 Apr 21 12:12 roi_1+orig.BRIK.gz
-rw-r--r-- 1 sandra sandra 1988 Apr 21 12:12 roi_2+orig.HEAD
-rw-r--r-- 1 sandra sandra 216 Apr 21 12:12 roi_2+orig.BRIK.gz
-rw-r--r-- 1 sandra sandra 1988 Apr 21 12:12 roi_3+orig.HEAD
-rw-r--r-- 1 sandra sandra 185 Apr 21 12:12 roi_3+orig.BRIK.gz
-rw-r--r-- 1 sandra sandra 1988 Apr 21 12:12 roi_4+orig.HEAD
drwxr-xr-x 1 sandra sandra 4096 Apr 21 12:12 .
-rw-r--r-- 1 sandra sandra 235 Apr 21 12:12 roi_4+orig.BRIK.gz
**------Second Approach-------**
sandra@DESKTOP-RJJ49UB:~/data/Data/automation-test/6.2_test$ rm -rf roi*
sandra@DESKTOP-RJJ49UB:~/data/Data/automation-test/6.2_test$ ls -latr |grep 'Apr 21'
drwxr-xr-x 1 sandra sandra 4096 Apr 21 12:14 .
sandra@DESKTOP-RJJ49UB:~/data/Data/automation-test/6.2_test$ x='04_BASELINE+orig' ;3dcalc -a ${x} -expr 'step(9-(x-28)*(x-28)-(y-42)*(y-42)-(z-12)*(z-12))' -prefix roi_1;3dcalc -a ${x} -expr 'step(9-(x-41)*(x-41)-(y-42)*(y-42)-(z-12)*(z-12))' -prefix roi_2;3dcalc -a ${x} -expr 'step(9-(x-26)*(x-26)-(y-55)*(y-55)-(z-12)*(z-12))' -prefix roi_3;3dcalc -a ${x} -expr 'step(9-(x-36)*(x-36)-(y-53)*(y-53)-(z-12)*(z-12))' -prefix roi_4
++ 3dcalc: AFNI version=AFNI_24.1.01 (Apr 5 2024) [64-bit]
++ Authored by: A cast of thousands
*+ WARNING: input 'a' is not used in the expression
++ Symbol x using predefined value
++ Symbol y using predefined value
++ Symbol z using predefined value
++ 3dcalc: AFNI version=AFNI_24.1.01 (Apr 5 2024) [64-bit]
++ Authored by: A cast of thousands
*+ WARNING: input 'a' is not used in the expression
++ Symbol x using predefined value
++ Symbol y using predefined value
++ Symbol z using predefined value
++ 3dcalc: AFNI version=AFNI_24.1.01 (Apr 5 2024) [64-bit]
++ Authored by: A cast of thousands
*+ WARNING: input 'a' is not used in the expression
++ Symbol x using predefined value
++ Symbol y using predefined value
++ Symbol z using predefined value
++ 3dcalc: AFNI version=AFNI_24.1.01 (Apr 5 2024) [64-bit]
++ Authored by: A cast of thousands
*+ WARNING: input 'a' is not used in the expression
++ Symbol x using predefined value
++ Symbol y using predefined value
++ Symbol z using predefined value
sandra@DESKTOP-RJJ49UB:~/data/Data/automation-test/6.2_test$ ls -latr |grep 'Apr 21'
-rw-r--r-- 1 sandra sandra 6698 Apr 21 12:17 roi_1+orig.HEAD
-rw-r--r-- 1 sandra sandra 77520 Apr 21 12:17 roi_1+orig.BRIK.gz
-rw-r--r-- 1 sandra sandra 6698 Apr 21 12:17 roi_2+orig.HEAD
-rw-r--r-- 1 sandra sandra 77520 Apr 21 12:17 roi_2+orig.BRIK.gz
-rw-r--r-- 1 sandra sandra 6698 Apr 21 12:17 roi_3+orig.HEAD
-rw-r--r-- 1 sandra sandra 77971 Apr 21 12:17 roi_3+orig.BRIK.gz
-rw-r--r-- 1 sandra sandra 6698 Apr 21 12:18 roi_4+orig.HEAD
drwxr-xr-x 1 sandra sandra 4096 Apr 21 12:18 .
-rw-r--r-- 1 sandra sandra 77881 Apr 21 12:18 roi_4+orig.BRIK.gz
sandra@DESKTOP-RJJ49UB:~/data/Data/automation-test/6.2_test$ 3dNetCorr \
> -inset 04_BASELINE+orig \
> -in_rois roi_1+orig roi_2+orig roi_3+orig roi_4+orig \
> -fish_z \
> -prefix roi/out
++ Reading in.
++ Allocating...
++ User didn't enter mask: will make my own, based on where I find nonzero time series.
++ Applying mask to ROIs.
++ Labelling regions internally.
++ No refset labeltable for naming things.
++ Getting volumes.
++ Calculating average time series.
++ Calculating correlation matrix.
++ Writing output: NETCORR ...
**Fatal Signal 11 (SIGSEGV) received**
** Bottom of Debug Stack**
**** AFNI version = AFNI_24.1.01 Compile date = Apr 5 2024**
**** [[Precompiled binary linux_ubuntu_16_64: Apr 5 2024]]**
**** Program Death ****
**** If you report this crash to the AFNI message board,**
**** please copy the error messages EXACTLY, and give**
**** the command line you used to run the program, and**
**** any other information needed to repeat the problem.**
**** You may later be asked to upload data to help debug.**
**** Crash log is appended to file /home/sandra/.afni.crashlog**
**-----Second Attempt CRASHLOG -----**
*********------ CRASH LOG ------------------------------***********
Fatal Signal 11 (SIGSEGV) received
.......... recent internal history .........................................
----mri_free [4]: EXIT} (file=mri_free.c line=69) to THD_delete_datablock {2826 ms}
++++mri_free [4]: {ENTRY (file=mri_free.c line=49) from THD_delete_datablock {2826 ms}
mri_free -- call killpurge {2826 ms}
+++++mri_killpurge [5]: {ENTRY (file=mri_purger.c line=259) from mri_free {2826 ms}
mri_killpurge -- check if im==NULL ptr=0x1c8d420
mri_killpurge -- can't killpurge NULL fname! {2826 ms}
-----mri_killpurge [5]: EXIT} (file=mri_purger.c line=270) to mri_free {2826 ms}
mri_free -- free im {2826 ms}
----mri_free [4]: EXIT} (file=mri_free.c line=69) to THD_delete_datablock {2826 ms}
++++mri_free [4]: {ENTRY (file=mri_free.c line=49) from THD_delete_datablock {2826 ms}
mri_free -- call killpurge {2826 ms}
+++++mri_killpurge [5]: {ENTRY (file=mri_purger.c line=259) from mri_free {2826 ms}
mri_killpurge -- check if im==NULL ptr=0x1c8d4e0
mri_killpurge -- can't killpurge NULL fname! {2826 ms}
-----mri_killpurge [5]: EXIT} (file=mri_purger.c line=270) to mri_free {2826 ms}
mri_free -- free im {2826 ms}
----mri_free [4]: EXIT} (file=mri_free.c line=69) to THD_delete_datablock {2826 ms}
++++mri_free [4]: {ENTRY (file=mri_free.c line=49) from THD_delete_datablock {2826 ms}
mri_free -- call killpurge {2826 ms}
+++++mri_killpurge [5]: {ENTRY (file=mri_purger.c line=259) from mri_free {2826 ms}
mri_killpurge -- check if im==NULL ptr=0x1c8d5a0
mri_killpurge -- can't killpurge NULL fname! {2826 ms}
-----mri_killpurge [5]: EXIT} (file=mri_purger.c line=270) to mri_free {2826 ms}
mri_free -- free im {2826 ms}
----mri_free [4]: EXIT} (file=mri_free.c line=69) to THD_delete_datablock {2826 ms}
THD_delete_datablock -- free brick_ stuff {2826 ms}
THD_delete_datablock -- KILL_KILL {2826 ms}
THD_delete_datablock -- free attributes {2826 ms}
---THD_delete_datablock [3]: EXIT} (file=thd_delete.c line=122) to THD_delete_3dim_dataset {2826 ms}
THD_delete_3dim_dataset -- KILL_KILL {2826 ms}
--THD_delete_3dim_dataset [2]: EXIT} (file=thd_delete.c line=179) to Bottom of Debug Stack {2826 ms}
............................................................................
** AFNI compile date = Apr 5 2024
** [[Precompiled binary linux_ubuntu_16_64: Apr 5 2024]]
** Program Crash **
**------Second Attempt New Files Created -----**
sandra@DESKTOP-RJJ49UB:~/data/Data/automation-test/6.2_test$ ls -latr |grep 'Apr 21'
-rw-r--r-- 1 sandra sandra 6698 Apr 21 12:17 roi_1+orig.HEAD
-rw-r--r-- 1 sandra sandra 77520 Apr 21 12:17 roi_1+orig.BRIK.gz
-rw-r--r-- 1 sandra sandra 6698 Apr 21 12:17 roi_2+orig.HEAD
-rw-r--r-- 1 sandra sandra 77520 Apr 21 12:17 roi_2+orig.BRIK.gz
-rw-r--r-- 1 sandra sandra 6698 Apr 21 12:17 roi_3+orig.HEAD
-rw-r--r-- 1 sandra sandra 77971 Apr 21 12:17 roi_3+orig.BRIK.gz
-rw-r--r-- 1 sandra sandra 6698 Apr 21 12:18 roi_4+orig.HEAD
-rw-r--r-- 1 sandra sandra 77881 Apr 21 12:18 roi_4+orig.BRIK.gz
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_001.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_000.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_004.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_003.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_002.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_007.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_006.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_005.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_010.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_009.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_008.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_013.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_012.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_011.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_016.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_015.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_014.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_019.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_018.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_017.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_022.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_021.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_020.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_025.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_024.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_023.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_028.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_027.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_026.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_031.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_030.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_029.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_034.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_033.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_032.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_037.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_036.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_035.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_040.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_039.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_038.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_042.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_041.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_045.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_044.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_043.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_046.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_048.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_047.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_050.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_049.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_053.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_052.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_051.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_056.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_055.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_054.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_058.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_057.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_060.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_059.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_063.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_062.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_061.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_065.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_064.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_068.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_067.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_066.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_071.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_070.roidat
-rw-r--r-- 1 sandra sandra 102 Apr 21 12:18 NETCORR_069.roidat
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_000.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_000.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_001.netcc
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_002.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_001.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_003.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_002.niml.dset
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_003.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_004.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_004.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_005.netcc
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_006.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_005.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_007.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_006.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_008.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_007.niml.dset
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_008.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_009.netcc
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_010.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_009.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_011.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_010.niml.dset
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_011.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_012.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_012.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_013.netcc
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_014.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_013.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_015.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_014.niml.dset
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_015.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_016.netcc
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_017.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_016.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_018.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_017.niml.dset
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_018.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_019.netcc
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_020.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_019.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_021.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_020.niml.dset
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_021.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_022.netcc
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_023.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_022.niml.dset
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_023.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_024.netcc
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_025.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_024.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_026.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_025.niml.dset
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_026.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_027.netcc
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_028.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_027.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_029.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_028.niml.dset
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_029.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_030.netcc
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_031.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_030.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_032.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_031.niml.dset
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_032.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_033.netcc
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_034.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_033.niml.dset
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-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_034.niml.dset
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_035.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_036.netcc
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_037.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_036.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_038.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_037.niml.dset
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_038.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_039.netcc
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_040.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_039.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_041.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_040.niml.dset
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_041.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_042.netcc
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_043.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_042.niml.dset
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_043.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_044.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_044.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_045.netcc
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_046.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_045.niml.dset
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_046.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_047.netcc
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_048.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_047.niml.dset
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-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_048.niml.dset
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_049.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_050.netcc
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_051.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_050.niml.dset
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_051.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_052.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_052.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_053.netcc
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_054.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_053.niml.dset
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_054.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_055.netcc
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-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_055.niml.dset
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-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_056.niml.dset
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_057.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_058.netcc
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-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_058.niml.dset
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-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_061.niml.dset
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-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_064.niml.dset
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-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_066.netcc
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-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_066.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_068.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_067.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_069.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_068.niml.dset
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_069.niml.dset
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_070.netcc
-rw-r--r-- 1 sandra sandra 124 Apr 21 12:18 NETCORR_071.netcc
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_070.niml.dset
drwxr-xr-x 1 sandra sandra 4096 Apr 21 12:18 .
-rw-r--r-- 1 sandra sandra 1306 Apr 21 12:18 NETCORR_071.niml.dset
**------Viewing inside NETCORR_070.* files created before the crash ------**
sandra@DESKTOP-RJJ49UB:~/data/Data/automation-test/6.2_test$ cat NETCORR_070.roidat
# N_vox N_nonnull frac # ROI ROI_label
2 2 1.00000 # 1 001
sandra@DESKTOP-RJJ49UB:~/data/Data/automation-test/6.2_test$ cat NETCORR_070.netcc
# 1 # Number of network ROIs
# 1 # Number of netcc matrices
# WITH_ROI_LABELS
001
1
# CC
1.0000
sandra@DESKTOP-RJJ49UB:~/data/Data/automation-test/6.2_test$ cat NETCORR_070.niml.dset
<AFNI_dataset
dset_type="Graph_Bucket"
self_idcode="AFN_tWrGQc4LM_9b59zqNCsr6A"
domain_parent_idcode
geometry_parent_idcode
filename="NETCORR_070.niml.dset"
label="SUMA_FloatVec_to_..."
ni_form="ni_group" >
<SPARSE_DATA
ni_type="float"
ni_dimen="1"
data_type="Graph_Bucket_data"
matrix_size=" 1 1"
matrix_shape="full" >
1
</SPARSE_DATA>
<AFNI_atr
ni_type="String"
ni_dimen="1"
atr_name="COLMS_RANGE" >
"1.000000 1.000000 0 0"
</AFNI_atr>
<AFNI_atr
ni_type="String"
ni_dimen="1"
atr_name="COLMS_LABS" >
"CC"
</AFNI_atr>
<AFNI_atr
ni_type="String"
ni_dimen="1"
atr_name="COLMS_TYPE" >
"Generic_Float"
</AFNI_atr>
<AFNI_atr
ni_type="String"
ni_dimen="1"
atr_name="COLMS_STATSYM" >
"none"
</AFNI_atr>
<INDEX_LIST
data_type="Graph_Bucket_edge_indices" />
<NODE_COORDS
ni_type="int,3*float,String"
ni_dimen="1"
data_type="Graph_Bucket_node_coordinates"
COLMS_RANGE="0 0 0 0;26.953125 26.953125 0 0;41.495193 41.495193 0 0;11.508999 11.508999 0 0;;"
COLMS_LABS="Gnode Index;Gnode X;Gnode Y;Gnode Z;Gnode Label;"
COLMS_TYPE="GNode_Index;X_coord;Y_coord;Z_coord;Node_String_Label;" >
0 26.95312 41.49519 11.509 "001"
</NODE_COORDS>
<network_link
network_file="NETCORR_070.niml.tract"
ni_form="ni_group" >
</network_link>
</AFNI_dataset>
------More details ----
When viewing roi* (spherical regions we defined) in AFNI, they appear as sherical regions showing no color.