Welcome! Log In Create A New Profile

AFNI Message Board

Dear AFNI users-

We are very pleased to announce that the new AFNI Message Board framework is up! Please join us at:

https://discuss.afni.nimh.nih.gov

Existing user accounts have been migrated, so returning users can login by requesting a password reset. New users can create accounts, as well, through a standard account creation process. Please note that these setup emails might initially go to spam folders (esp. for NIH users!), so please check those locations in the beginning.

The current Message Board discussion threads have been migrated to the new framework. The current Message Board will remain visible, but read-only, for a little while.

Sincerely, AFNI HQ

History of AFNI updates

Previous Message Next Message

Message List New Topic Print View

|

cooldesert

October 31, 2019 03:29PM

Registered: 5 years ago
Posts: 16

Sorry! I must have misread your previous message. Here is the output.

As for the data size, I previously used 3dresample to change orientation, which changed the grid and thus file size. I didn't use it this time, and the whole folder size is about 7BG. FYI.

sungjin@SMHCAS211AL01:~/fMRI/CGE/265001.s1.results.v1$ ls -lh pb0*BRIK*
-rw-r--r-- 1 sungjin sungjin 50M Oct 26 12:44 pb00.265001.r01.tcat+orig.BRIK
-rw-r--r-- 1 sungjin sungjin 42M Oct 26 12:44 pb00.265001.r02.tcat+orig.BRIK
-rw-r--r-- 1 sungjin sungjin 42M Oct 26 12:44 pb00.265001.r03.tcat+orig.BRIK
-rw-r--r-- 1 sungjin sungjin 42M Oct 26 12:44 pb00.265001.r04.tcat+orig.BRIK
-rw-r--r-- 1 sungjin sungjin 42M Oct 26 12:44 pb00.265001.r05.tcat+orig.BRIK
-rw-r--r-- 1 sungjin sungjin 50M Oct 26 12:44 pb00.265001.r06.tcat+orig.BRIK
-rw-r--r-- 1 sungjin sungjin 50M Oct 26 12:45 pb01.265001.r01.tshift+orig.BRIK
-rw-r--r-- 1 sungjin sungjin 42M Oct 26 12:45 pb01.265001.r02.tshift+orig.BRIK
-rw-r--r-- 1 sungjin sungjin 42M Oct 26 12:45 pb01.265001.r03.tshift+orig.BRIK
-rw-r--r-- 1 sungjin sungjin 42M Oct 26 12:45 pb01.265001.r04.tshift+orig.BRIK
-rw-r--r-- 1 sungjin sungjin 42M Oct 26 12:45 pb01.265001.r05.tshift+orig.BRIK
-rw-r--r-- 1 sungjin sungjin 50M Oct 26 12:45 pb01.265001.r06.tshift+orig.BRIK
-rw-r--r-- 1 sungjin sungjin 99M Oct 26 12:45 pb02.265001.r01.despike+orig.BRIK
-rw-r--r-- 1 sungjin sungjin 83M Oct 26 12:45 pb02.265001.r02.despike+orig.BRIK
-rw-r--r-- 1 sungjin sungjin 83M Oct 26 12:45 pb02.265001.r03.despike+orig.BRIK
-rw-r--r-- 1 sungjin sungjin 83M Oct 26 12:45 pb02.265001.r04.despike+orig.BRIK
-rw-r--r-- 1 sungjin sungjin 83M Oct 26 12:45 pb02.265001.r05.despike+orig.BRIK
-rw-r--r-- 1 sungjin sungjin 99M Oct 26 12:45 pb02.265001.r06.despike+orig.BRIK
-rw-r--r-- 1 sungjin sungjin 151M Oct 26 16:09 pb03.265001.r01.volreg+tlrc.BRIK.gz
-rw-r--r-- 1 sungjin sungjin 126M Oct 26 16:10 pb03.265001.r02.volreg+tlrc.BRIK.gz
-rw-r--r-- 1 sungjin sungjin 126M Oct 26 16:11 pb03.265001.r03.volreg+tlrc.BRIK.gz
-rw-r--r-- 1 sungjin sungjin 126M Oct 26 16:13 pb03.265001.r04.volreg+tlrc.BRIK.gz
-rw-r--r-- 1 sungjin sungjin 126M Oct 26 16:14 pb03.265001.r05.volreg+tlrc.BRIK.gz
-rw-r--r-- 1 sungjin sungjin 150M Oct 26 16:15 pb03.265001.r06.volreg+tlrc.BRIK.gz
-rw-r--r-- 1 sungjin sungjin 354M Oct 26 16:17 pb04.265001.r01.blur+tlrc.BRIK.gz
-rw-r--r-- 1 sungjin sungjin 295M Oct 26 16:18 pb04.265001.r02.blur+tlrc.BRIK.gz
-rw-r--r-- 1 sungjin sungjin 295M Oct 26 16:19 pb04.265001.r03.blur+tlrc.BRIK.gz
-rw-r--r-- 1 sungjin sungjin 295M Oct 26 16:20 pb04.265001.r04.blur+tlrc.BRIK.gz
-rw-r--r-- 1 sungjin sungjin 295M Oct 26 16:22 pb04.265001.r05.blur+tlrc.BRIK.gz
-rw-r--r-- 1 sungjin sungjin 354M Oct 26 16:23 pb04.265001.r06.blur+tlrc.BRIK.gz
-rw-r--r-- 1 sungjin sungjin 145M Oct 26 16:28 pb05.265001.r01.scale+tlrc.BRIK.gz
-rw-r--r-- 1 sungjin sungjin 121M Oct 26 16:30 pb05.265001.r02.scale+tlrc.BRIK.gz
-rw-r--r-- 1 sungjin sungjin 121M Oct 26 16:32 pb05.265001.r03.scale+tlrc.BRIK.gz
-rw-r--r-- 1 sungjin sungjin 121M Oct 26 16:34 pb05.265001.r04.scale+tlrc.BRIK.gz
-rw-r--r-- 1 sungjin sungjin 121M Oct 26 16:36 pb05.265001.r05.scale+tlrc.BRIK.gz
-rw-r--r-- 1 sungjin sungjin 145M Oct 26 16:39 pb05.265001.r06.scale+tlrc.BRIK.gz
sungjin@SMHCAS211AL01:~/fMRI/CGE/265001.s1.results.v1$ 3dinfo -n4 -datum -prefix pb05.*.r01.scale+tlrc.HEAD
193 229 193 180 float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float|float pb05.265001.r01.scale
sungjin@SMHCAS211AL01:~/fMRI/CGE/265001.s1.results.v1$ 3dinfo pb05.*.r01.scale+tlrc.HEAD | head -n 30
++ 3dinfo: AFNI version=AFNI_19.0.26 (Mar 20 2019) [64-bit]

Dataset File: pb05.265001.r01.scale+tlrc
Identifier Code: AFN_CLiLFuBLihjL1q0LTbCOPQ Creation Date: Sat Oct 26 16:26:53 2019
Template Space: MNI
Dataset Type: Echo Planar (-epan)
Byte Order: LSB_FIRST [this CPU native = LSB_FIRST]
Storage Mode: BRIK
Storage Space: 6,141,615,120 (6.1 billion) bytes
Geometry String: "MATRIX(-1,0,0,96,0,-1,0,132,0,0,1,-78):193,229,193"
Data Axes Tilt: Plumb
Data Axes Orientation:
first (x) = Left-to-Right
second (y) = Posterior-to-Anterior
third (z) = Inferior-to-Superior [-orient LPI]
R-to-L extent: -96.000 [R] -to- 96.000 [L] -step- 1.000 mm [193 voxels]
A-to-P extent: -96.000 [A] -to- 132.000 [P] -step- 1.000 mm [229 voxels]
I-to-S extent: -78.000 -to- 114.000 [S] -step- 1.000 mm [193 voxels]
Number of time steps = 180 Time step = 2.00000s Origin = 0.00000s
-- At sub-brick #0 '#0' datum type is float: 0 to 138.931
-- At sub-brick #1 '#1' datum type is float: 0 to 160.561
-- At sub-brick #2 '#2' datum type is float: 0 to 147.413
** For info on all 180 sub-bricks, use '3dinfo -verb' **

----- HISTORY -----
[sungjin@SMHCAS211AL01: Sat Oct 26 16:26:53 2019] ===================================
[sungjin@SMHCAS211AL01: Sat Oct 26 16:26:53 2019] === History of inputs to 3dcalc ===
[sungjin@SMHCAS211AL01: Sat Oct 26 16:26:53 2019] === Input a:
[sungjin@SMHCAS211AL01: Sat Oct 26 16:26:53 2019] [sungjin@SMHCAS211AL01: Sat Oct 26 16:08:14 2019] ===================================
[sungjin@SMHCAS211AL01: Sat Oct 26 16:08:14 2019] === History of inputs to 3dcalc ===
[sungjin@SMHCAS211AL01: Sat Oct 26 16:08:14 2019] === Input a:

Fatal Signal 13 (SIGPIPE) received
3dinfo main
Bottom of Debug Stack
** AFNI version = AFNI_19.0.26 Compile date = Mar 20 2019
** [[Precompiled binary linux_ubuntu_16_64: Mar 20 2019]]
** 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/sungjin/.afni.crashlog
sungjin@SMHCAS211AL01:~/fMRI/CGE/265001.s1.results.v1$ free -h
total used free shared buff/cache available
Mem: 15G 1.1G 7.7G 450M 6.8G 13G
Swap: 2.0G 780K 2.0G

Edited 2 time(s). Last edit at 10/31/2019 04:46PM by cooldesert.

Reply Quote

RSS

Subject	Author	Posted
current memory mallocated error	cooldesert	October 21, 2019 02:34PM
Re: current memory mallocated error	ptaylor	October 21, 2019 05:04PM
Re: current memory mallocated error	cooldesert	October 23, 2019 11:57AM
Re: current memory mallocated error	ptaylor	October 23, 2019 12:37PM
Re: current memory mallocated error	cooldesert	October 23, 2019 12:53PM
Re: current memory mallocated error	ptaylor	October 23, 2019 01:00PM
Re: current memory mallocated error	cooldesert	October 23, 2019 01:41PM
Re: current memory mallocated error	ptaylor	October 23, 2019 03:22PM
Re: current memory mallocated error	rick reynolds	October 23, 2019 03:24PM
Re: current memory mallocated error	cooldesert	October 24, 2019 01:34PM
Re: current memory mallocated error	cooldesert	October 26, 2019 05:11PM
Re: current memory mallocated error	rick reynolds	October 28, 2019 09:57AM
Re: current memory mallocated error	cooldesert	October 31, 2019 03:29PM
Re: current memory mallocated error	rick reynolds	October 31, 2019 05:08PM
Re: current memory mallocated error	cooldesert	November 01, 2019 04:35PM
Re: current memory mallocated error	rick reynolds	November 14, 2019 09:48AM