[VoxBo] vbperminfo

[Marina Bedny]

Hi Dan,

Thanks for the response.

I ran the following:

[mbedny at cajal] /data/mbedny/imageability> vbbatch -c "vbperminfo -p / 
data/mbedny/imageability/Normed2/rfxGLM/TVerb-Noun_beta_perm/ 
iterations/permcub_000 /data/mbedny/imageability/Normed2/rfxGLM/V- 
NCluster15.ref .05" foo

I got an output of:

The following command lines were generated:
   vbperminfo -p /data/mbedny/imageability/Normed2/rfxGLM/TVerb- 
Noun_beta_perm/iterations/permcub_000 /data/mbedny/imageability/ 
Normed2/rfxGLM/V-NCluster15.ref .05

I'm not clear on what I do now.

Thanks,

m
On Oct 30, 2006, at 9:59 AM, Daniel Y Kimberg wrote:

> Marina Bedny wrote:
>> I am trying to use vbperminfo to get a critical threshold with a
>> minimum cluster size. Vbperminfo times out before finishing each time
>> I run it. That is, I get signed out from the x-terminal before
>> vbperinfo finishes.
>>
>> Any thoughts on how I can get around this?
>
> You could do it in vbbatch, as in:
>
> vbbatch -c "vbperminfo -p /my/data/iterations/permcube /my/data/ 
> results.ref 0.05" foo
>
> (The "foo" at the end is just a dummy to tell vbbatch to generate a  
> command line.)
>
> If you're fluent in using vbbatch, you could break it up, as in the
> following:
>
> vbbatch -c "vbperminfo -p /my/data/terations/permcube_FILE /my/data/ 
> resultsFILE.ref 0.05" 0000 0001 0002 0003 0004 0005 0006 0007 0008  
> 0009 0010
>
> Something like that, depending on how many permutations you have.  All
> those 000x tokens get inserted in the command line in place of the
> token FILE.  Once you have all the ref files, merge them in a text
> editor, and calculate the permutation cutoff you need using vbperminfo
> -r (which just takes a second to run).
>
> dan