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Dear group,
I was running the dual regression on my ICA components, but the stage3 is not running.
I checked the FAQ about RAM problems and got this message error.
Is the computer too busy or Am I doing something wrong?

Thank you,
Fernanda




 fslerrorreport
/Applications/fsl/bin/fslerrorreport: line 100: vmstat: command not found
** ERROR (nifti_image_read): failed to find header file for '/Users/emerson/Desktop/desktop/NMO_MAIO11'
** ERROR: nifti_image_open(/Users/emerson/Desktop/desktop/NMO_MAIO11): bad header info
Error: failed to open file /Users/emerson/Desktop/desktop/NMO_MAIO11
ERROR: Could not open file
 
######################################################################
#### MACHINE INFORMATION
######################################################################
 
Uname:
Darwin
 
df:
Filesystem   512-blocks      Used Available Capacity  Mounted on
/dev/disk0s2  976101344 690587240 285002104    71%    /
 
quota:
Disk quotas for user emerson (uid 501): none
 
Memory and Swap info:
Mach Virtual Memory Statistics: (page size of 4096 bytes)
Pages free:                         330957.
Pages active:                       276690.
Pages inactive:                    1043300.
Pages speculative:                  225728.
Pages wired down:                   154696.
"Translation faults":            613002030.
Pages copy-on-write:              22170274.
Pages zero filled:               427368281.
Pages reactivated:                   26475.
Pageins:                            193187.
Pageouts:                            38513.
Object cache: 30 hits of 282338 lookups (0% hit rate)
 
######################################################################
#### ENVIRONMENT INFORMATION
######################################################################
 
FSLMULTIFILEQUIT=TRUE
FSLMACHTYPE=
FSLTCLSH=/Applications/fsl/bin/fsltclsh
FSLMACHINELIST=
FSLREMOTECALL=
FSLWISH=/Applications/fsl/bin/fslwish
FSLCONFDIR=/Applications/fsl/config
FSLDIR=/Applications/fsl
FSLLOCKDIR=
FSLOUTPUTTYPE=NIFTI_GZ
 
PATH=/Applications/fsl/bin:/usr/bin:/bin:/usr/sbin:/sbin:/usr/local/bin:/usr/X11/bin
 
######################################################################
#### DIRECTORY INFORMATION
######################################################################
 
PWD:
/Users/emerson/Desktop/desktop/NMO_MAIO11
 
total 120
drwxr-xr-x   33 emerson  staff   1122 May 12 17:00 .
drwxr-xr-x   83 emerson  staff   2822 May  5 17:36 ..
-rw-r--r--@   1 emerson  staff  21508 May 12 17:08 .DS_Store
drwxrwxrwx    5 emerson  staff    170 Mar 22 14:06 ADRIANA_PAZ
drwxrwxrwx    5 emerson  staff    170 Mar 24 10:55 ANA_MARIA_NUNES_DE_MORAES
drwxrwxrwx    5 emerson  staff    170 Mar 22 14:07 ANGELA_MARIA_TAVARES_MARQUES
drwxrwxrwx    5 emerson  staff    170 Mar 24 09:37 CELIA_CRISTINA_SIQUEIRA_CRUZ_CONTROLE_46
drwxrwxrwx    5 emerson  staff    170 Mar 24 09:38 CLAUDIA_ALVES_DA_SILVA_32
drwxrwxrwx    5 emerson  staff    170 Mar 24 09:39 CLAUDILENE_SANTOS_OLIVEIRA_38
drwxrwxrwx    5 emerson  staff    170 Mar 24 09:41 CRISTIANE_P_DO_ROSARIO_36
drwxrwxrwx    5 emerson  staff    170 Mar 22 14:09 DIOGO_MENDES_BARBOSA
drwxrwxrwx    5 emerson  staff    170 Mar 24 09:42 DJANEIDE_GOMES_DA_SILVA_43
drwxrwxrwx    5 emerson  staff    170 Mar 24 09:44 DULCILENE_OLIVEIRA_DE_JESUS_45
drwxrwxrwx    5 emerson  staff    170 Mar 24 09:44 ENILSON_J_SALES_53
drwxrwxrwx    5 emerson  staff    170 Mar 22 14:09 HELCIO_ALVIN_SILVESTRE_BARBOSA
drwxrwxrwx    5 emerson  staff    170 Mar 31 16:29 IRANI_ESTEVES_AZEVEDO
drwxrwxrwx    5 emerson  staff    170 Mar 22 14:10 JAHNE_KELLY_SOUSA_DOS_SANTOS
drwxrwxrwx    5 emerson  staff    170 Mar 24 09:45 JOELZA_FELIPE_DA_SILVA_40
drwxrwxrwx    5 emerson  staff    170 Mar 24 09:46 JORCELINO_ZOZIMO_DA_SILVA_54
drwxrwxrwx    5 emerson  staff    170 Mar 22 14:11 JORGE_SOARES_DE_ALMEIDA
drwxrwxrwx    5 emerson  staff    170 Mar 24 09:47 JOSE_ASCENDINO_DA_SILVA_68
drwxrwxrwx    5 emerson  staff    170 Mar 22 15:03 JOSE_CARLOS_DA_SILVA
drwxrwxrwx    5 emerson  staff    170 Mar 24 09:48 JOSE_RICARDO_SIQUEIRA_MENDES_43
drwxrwxrwx    5 emerson  staff    170 Mar 22 15:28 LUCILENE_DIAS_VIEIRA
drwxrwxrwx    5 emerson  staff    170 Mar 22 15:29 MARIA_REGINA_DA_SILVA
drwxrwxrwx    5 emerson  staff    170 Mar 24 09:49 Marcelo_Vieira_Greca_43
drwxrwxrwx    5 emerson  staff    170 Mar 22 15:30 SYDNEY_CAMARGO_DE_MORAIS
-rw-r--r--    1 emerson  staff    342 Mar 24 13:18 design.con
-rw-r--r--    1 emerson  staff  17691 May  5 18:04 design.fsf
-rw-r--r--    1 emerson  staff    721 Mar 24 13:18 design.mat
drwxr-xr-x  101 emerson  staff   3434 May 12 17:08 dual
drwxr-xr-x   15 emerson  staff    510 May  6 02:54 groupICA.gica
-rw-r--r--@   1 emerson  staff   4954 May 12 15:39 lista.txt
 
######################################################################
#### IMAGE INFORMATION
######################################################################
 
 
This error report is saved in the file: /tmp/fsl_uhg3K3.gz
 


Date: Sun, 6 Mar 2011 05:53:18 +0000
From: [log in to unmask]
Subject: Re: [FSL] dual regression results
To: [log in to unmask]



Hi - sounds likely that you have RAM problems - see the RAM/swap entry on the FSL FAQ?Cheers.


On 5 Mar 2011, at 21:35, Timothy Rittman wrote:Hi Christian and Amy,

I was having similar problems with the dual regression scripts either partially running or not running at all. The script would usually terminate either before creating the masks, or halfway through creating the masks. The dual regression script would behave as if it had finished, ie 'running dual regressions', 'running randomise'. There was nothing in the logs referring to why the script had terminated.

I found the running the scripts individually (drA, drB, drC and drD) seems to work. The output looks correct. Can I just check firstly, this will not miss out any part of the dual regression sequence, and secondly is there a reason why the script would not run completely on initial running? It's not a big issue, more of a minor inconvenience.

The set up is not too complicated; two groups (21 controls and 28 disease group) running the dual regression with the ICA output from the controls.

Regards,

Tim

On 05/03/11 13:31, Christian F. Beckmann wrote:
Hi,

It seems that the script did not complete - check the log files and make sure that you use a proper design matrix and contrast file.
hth
Christian

On 4 Mar 2011, at 23:56, Amy Zhong Sheng Zheng wrote:

Thanks for the response. If I want to compare to see if there's significant difference between the two groups for some of the IC components, how would I be able to do that? To get outputs like these for each component: dr_stage2_ic0001.nii.gz dr_stage3_ic0001_tstat1.nii.gz
dr_stage3_ic0001_tfce_p_tstat1.nii.gz
dr_stage3_ic0001_tfce_corrp_tstat1.nii.gz

On Thu, Mar 3, 2011 at 10:42 PM, Stephen Smith<[log in to unmask]>  wrote:
Hi - one set of images are zstat versions of the output (dividing the 'effect size' by the residuals) and the other set are the 'effect size' (like PE inFEAT).
Cheers.


On 4 Mar 2011, at 02:17, Amy wrote:

Hello,

I'm fairly new to using dual regression. I ran dual regression on my two sets of model-free data each with 3 subjects using concat ICA to compare the 2 groups (6 inputs total). The ICA result showed 33 components, but when I ran dual regression, I got outputs like this:
dr_stage2_subject00005_Z
dr_stage2_subject00005
dr_stage2_subject00004_Z
dr_stage2_subject00004
dr_stage2_subject00003_Z
dr_stage2_subject00003
dr_stage2_subject00002_Z
dr_stage2_subject00002
dr_stage2_subject00001_Z
dr_stage2_subject00001
dr_stage2_subject00000_Z
dr_stage2_subject00000

This does not look like the dual regression outputs I've seen before. Does anyone know what might have caused this?

Thanks,
Amy


---------------------------------------------------------------------------
Stephen M. Smith, Professor of Biomedical Engineering
Associate Director,  Oxford University FMRIB Centre

FMRIB, JR Hospital, Headington, Oxford  OX3 9DU, UK
+44 (0) 1865 222726  (fax 222717)
[log in to unmask]    http://www.fmrib.ox.ac.uk/~steve
---------------------------------------------------------------------------







---------------------------------------------------------------------------
Stephen M. Smith, Professor of Biomedical Engineering
Associate Director,  Oxford University FMRIB Centre

FMRIB, JR Hospital, Headington, Oxford  OX3 9DU, UK
+44 (0) 1865 222726  (fax 222717)
[log in to unmask]    http://www.fmrib.ox.ac.uk/~steve
---------------------------------------------------------------------------