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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

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Brandon
April 11, 2010 05:37PM
Hi Ziad,
Thanks for the response. I've succeeded in getting past the first error, but have now come across another (although they vary based on whether I set the Opt.Quiet setting to 1 or 0; see below).
Thanks for your help.
Brandon

>> RetroTS(Opt)

Opt =

PhysFS: 40
Nslices: 30
VolTR: 2
Respfile: '/Volumes/HD_2/RSVP/fMRI/Physio/P3_Run1_Resp.txt'
Cardfile: '/Volumes/HD_2/RSVP/fMRI/Physio/P3_Run1_Card.txt'
Quiet: 0
err: 1
zerophaseoffset: 0
SliceMajor: 1
RVTshifts: [0 5 10 15 20]
ResampFS: 40
RespCutoffFreq: 3
CardCutoffFreq: 3
ResamKernel: 'linear'
FIROrder: 40
Demo: 0
Prefix: 'oba'
Resp_out: 1
Card_out: 1
RVT_out: 1
SepDups: 0
SliceOffset: [30x1 double]
SliceOrder: 'alt+z'

Slice timing:
ans =

0
1.0000
0.0667
1.0667
0.1333
1.1333
0.2000
1.2000
0.2667
1.2667
0.3333
1.3333
0.4000
1.4000
0.4667
1.4667
0.5333
1.5333
0.6000
1.6000
0.6667
1.6667
0.7333
1.7333
0.8000
1.8000
0.8667
1.8667
0.9333
1.9333

File /Volumes/HD_2/RSVP/fMRI/Physio/P3_Run1_Resp.txt exists and will be read.
Reading file
--> Load signal
--> Smooth signal
--> Calculate analytic signal Z
--> Find zero crossing of imag(Z)

--> Improved peak location
--> Removed duplicates

--> Calculated the period (from beat to beat)

??? Index exceeds matrix dimensions.

Error in ==> plotsign2 at 78
if (CallPath(1)=='.') CallPath = pwd; end

Error in ==> PeakFinder at 281
if (~Opt.Quiet), plotsign2(1); end

Error in ==> RetroTS at 274
[R,e]= PeakFinder(Opt.Respfile,OptR);

>> Opt.Quiet = 1

Opt =

PhysFS: 40
Nslices: 30
VolTR: 2
Respfile: '/Volumes/HD_2/RSVP/fMRI/Physio/P3_Run1_Resp.txt'
Cardfile: '/Volumes/HD_2/RSVP/fMRI/Physio/P3_Run1_Card.txt'
Quiet: 1

>> RetroTS(Opt)

Opt =

PhysFS: 40
Nslices: 30
VolTR: 2
Respfile: '/Volumes/HD_2/RSVP/fMRI/Physio/P3_Run1_Resp.txt'
Cardfile: '/Volumes/HD_2/RSVP/fMRI/Physio/P3_Run1_Card.txt'
Quiet: 1
err: 1
zerophaseoffset: 0
SliceMajor: 1
RVTshifts: [0 5 10 15 20]
ResampFS: 40
RespCutoffFreq: 3
CardCutoffFreq: 3
ResamKernel: 'linear'
FIROrder: 40
Demo: 0
Prefix: 'oba'
Resp_out: 1
Card_out: 1
RVT_out: 1
SepDups: 0
SliceOffset: [30x1 double]
SliceOrder: 'alt+z'

File /Volumes/HD_2/RSVP/fMRI/Physio/P3_Run1_Resp.txt exists and will be read.
Reading file
File /Volumes/HD_2/RSVP/fMRI/Physio/P3_Run1_Card.txt exists and will be read.
Reading file
Estimating phase for R
Estimating phase for E
Computing RVT from peaks
Showing RVT Peaks for R
??? Index exceeds matrix dimensions.

Error in ==> plotsign2 at 78
if (CallPath(1)=='.') CallPath = pwd; end

Error in ==> Show_RVT_Peak at 58
plotsign2(fg);

Error in ==> RetroTS at 305
Show_RVT_Peak(R,1);

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Subject Author Posted

RetroTS

Brandon April 07, 2010 03:07PM

Re: RetroTS

Ziad April 10, 2010 09:07PM

Re: RetroTS

Brandon April 11, 2010 05:37PM

Re: RetroTS

ziad April 12, 2010 09:17AM