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  

|
July 25, 2018 11:46PM
Hi rick,
I'm totally new in afni. I have a similar error about the "permission denied".
When running the preprocessing script, everything runs smoothly until:

./@ss_review_basic
./@ss_review_basic: Permission denied

Then running tcsh @ss_review_basic
gives:
subject ID : cl
TRs removed (per run) : 0
num stim classes provided : 12
final anatomy dset : anat_final.cl+tlrc.HEAD
final stats dset : stats.cl+tlrc.HEAD
final voxel resolution : 3.000000 3.000000 3.000000

motion limit : 0.3
num TRs above mot limit : 11
average motion (per TR) : 0.0604953
max motion displacement : 3.19793
outlier limit : 0.1
average outlier frac (TR) : 0.00628819
num TRs above out limit : 23

num runs found : 8
num TRs per run : 170 170 170 170 170 170 170 170
TRs total : 1360
degrees of freedom used : 230
degrees of freedom left : 1130

num regs of interest : 192
num TRs per stim : 14 14 14 14 14 14 14 14 14 6 14 14 6 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 6 14 14 14 14 13 14 14 6 14 6 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 6 14 14 14 14 14 14 14 13 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 6 14 14 14 14 14 14 14 14 14 14 14 13 14 14 14 14 13 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 14 13 14 14 6 14 14 14 14 13 14 14 14 14 14 14 14 14 14 14 14 14 13 14 14 14 14 14 14 13 14 14 14 14 14 14 14 14 14
ave mot per sresp : 0.049754 0.046569 0.044845 0.082998 0.059557 0.050515 0.055109 0.061102 0.061298 0.065610 0.062176 0.079549 0.063803 0.040637 0.080826 0.056717 0.042695 0.056994 0.051963 0.059303 0.042055 0.048362 0.041535 0.054816 0.048977 0.054542 0.049595 0.049400 0.046039 0.089451 0.049038 0.160896 0.048545 0.051107 0.058961 0.072722 0.049544 0.052277 0.052512 0.049582 0.146770 0.057037 0.060320 0.065764 0.063399 0.062779 0.046183 0.074308 0.050808 0.047347 0.047225 0.052453 0.048620 0.048598 0.049140 0.065594 0.041526 0.060825 0.056635 0.065749 0.105498 0.052369 0.153502 0.051474 0.062655 0.051226 0.048882 0.047062 0.059697 0.057504 0.050415 0.103944 0.046650 0.051499 0.061409 0.049295 0.072351 0.107077 0.073182 0.059581 0.044654 0.041675 0.056747 0.051991 0.062605 0.092354 0.041068 0.065016 0.046994 0.044322 0.043773 0.052231 0.064680 0.130568 0.136401 0.177856 0.045099 0.066198 0.074524 0.055911 0.036859 0.047962 0.066714 0.097773 0.038927 0.079309 0.056390 0.052234 0.083104 0.048807 0.078329 0.057988 0.042471 0.042764 0.047964 0.044729 0.050483 0.056770 0.094465 0.068755 0.065612 0.059504 0.046927 0.050682 0.048577 0.041346 0.048205 0.045900 0.054419 0.058754 0.040527 0.059105 0.052783 0.055980 0.048988 0.067387 0.046264 0.150880 0.044720 0.043746 0.101190 0.104776 0.063277 0.064351 0.051607 0.067616 0.058231 0.055516 0.060469 0.070095 0.054973 0.053492 0.052769 0.052124 0.053988 0.045691 0.058984 0.167187 0.049739 0.052668 0.052486 0.051965 0.059250 0.039589 0.055986 0.058098 0.054885 0.052185 0.070186 0.049582 0.036732 0.043909 0.053423 0.054731 0.048118 0.056171 0.052361 0.046359 0.056834 0.050711 0.072551 0.050101 0.076801 0.046901 0.047991 0.078321 0.078141 0.050181 0.047078 0.055730 0.060203 0.056482

TSNR average : 221.168
global correlation (GCOR) : 0.06624
anat/EPI mask Dice coef : 0.921968
maximum F-stat (masked) : 19.5891
blur estimates (ACF) : 0.66514 3.34687 10.5599
blur estimates (FWHM) : 0 0 0

My experiment is slow event-related design. There are 8 runs and 12 types of stimulus conditions in a scanning session, each run consisted of 24 trials (1 trial=14s) and 1TR=2s. As shown above, some num TRs per stim: 6 or 13, was the timing files wrong? I have checked the time files. What other causes may there be?

Thanks a lot in advance.
-jiaxin
Subject Author Posted

error message- "permission denied"

oya December 02, 2012 01:38PM

Re: error message- "permission denied"

rick reynolds December 02, 2012 01:52PM

Re: error message- "permission denied"

oya December 02, 2012 01:56PM

Re: error message- "permission denied"

rick reynolds December 02, 2012 02:59PM

Re: error message- "permission denied"

Maria December 02, 2012 05:59PM

Re: error message- "permission denied"

Maria December 03, 2012 02:13PM

Re: error message- "permission denied"

rick reynolds December 03, 2012 04:20PM

Re: error message- "permission denied"

Maria December 03, 2012 04:32PM

Re: error message- "permission denied"

daisyburr January 30, 2018 01:42PM

Re: error message- "permission denied"

rick reynolds January 30, 2018 02:05PM

Re: error message- "permission denied"

daisyburr January 30, 2018 03:06PM

Re: error message- "permission denied"

rick reynolds January 30, 2018 03:33PM

Re: error message- "permission denied"

daisyburr January 30, 2018 03:58PM

Re: error message- "permission denied"

rick reynolds January 30, 2018 09:22PM

Re: error message- "permission denied"

daisyburr January 30, 2018 11:01PM

Re: error message- "permission denied"

rick reynolds January 31, 2018 08:51AM

Re: error message- "permission denied"

daisyburr January 31, 2018 10:35AM

Re: error message- "permission denied"

rick reynolds January 31, 2018 11:59AM

Re: error message- "permission denied"

daisyburr January 31, 2018 12:33PM

Re: error message- "permission denied"

jiaxin July 25, 2018 11:46PM

Re: error message- "permission denied"

rick reynolds July 26, 2018 09:17AM

Re: error message- "permission denied"

jiaxin July 26, 2018 10:00AM

Re: error message- "permission denied"

rick reynolds July 26, 2018 11:33AM

Re: error message- "permission denied"

jiaxin July 26, 2018 08:36PM

Re: error message- "permission denied"

jiaxin July 27, 2018 01:35AM

Re: error message- "permission denied"

rick reynolds July 27, 2018 09:21AM