Hi - I was able to sucessfully run and generate the qa plots on our phantom data. I am currently trying to run the same on our human data using the fmriqa_generate.pl script. I keep getting an error saying  - 'Cant find required file "index-js.html"'.

My current command line arguments are all default settings, any help on how to resolve the above would be greatly appreciated

Best
Shashwath

Can you tell me which release you downloaded? (including platform) Thanks...

Hi Syam - I am using version 1.10.7 that I downloaded perhaps a couple weeks ago. I am running it on a Linux Machine with Cent OS 6.4. 

Please let me know.

Thx
Shashwath

I've just uploaded the latest release (1.11.1). Can you try that first and see if it has the same issue? Thanks...

Hi Syam - Sorry for the delay, yes it gives me the same error with the new  version.

Originally posted by Syam Gadde:
Syam - I was finally able to run the analysis. Is there a manuscript (similar to the Glover et al 2006) published explaining the QC measures that the human QA script produces?

Great! The best documentation available for the "human" QA output is in the pop-up windows for each metric when you click on "What's this?" (or the blue question marks in the Javascript-based version).

For any lost souls who are wondering what the solution is -- I had the same problem and just debugged it.

For me, at least, the problem was running the script from within the 'bin' directory as "./fmriqa_generate.pl" which causes the script not to know which directory it is being run from, and thus not to be able to find the files it needs.

It worked when I either invoked the script using its full pathname (starting with a slash), or added the 'bin' directory to my path and ran the script as simply "fmriqa_generate.pl"

(I'm on a Mac but from a quick pass through the Perl, I expect the experience to be the same with any *nix operating system.)

Now on to my next challenge -- getting ImageMagick working correctly with the same script...

Cheers,
MJ

PS Hi Shashwath!