[VoxBo] 1) prm to cub; 2) mask function

[Daniel Y Kimberg]

Joonkoo Park wrote:
> *.prm* files contain 3D statistical map along with contrast
> information. In order to select one of the many possible contrasts - (1
> 0 0 -1) for 4 covariates - and save it as a *.cub* file, I now do the
> following:
...
> This get's quite burdensome if there are many subjects and contrasts.
> Is there a command line function that does all this in one script? I
> searched through VoxBo pipermail regarding this issue, and similar
> question was brought up in 2002, but I couldn't find a nice solution
> for this.

I'm not 100% sure, but I believe the current version of vbstatmap
(1.8.4) will work with older releases -- that is, you can download it
and get the benefit of the new features without having to upgrade
anything else.  The docs and download links are at:

http://voxbo.org/wiki/index.php/Vbstatmap

With a simple shell script you can iterate over subjects and contrasts
automatically.

> Another question. I want to save a .cub file with mask applied to
> it. I can again go to vv in idl, then open an original .cub file,
> then mask it, then save it as filtered cube. Is there an easier
> command line function for this as well? I noticed vbmaskmunge
> function has evolved in the newer release and this is perhaps the
> right function. But my version of voxbo doesn't seem to support
> vbmaskmunge. Is there another way to do this before upgrading to a
> newer version?

vbmaskmunge is indeed the best way to do this -- you could download
just the newer version of vbmaskmunge.

For both of these, if you're worried about breaking something in your
current setup (vbstatmap is used in some jobtypes, I'm not sure if
that was true in 1.6) give the file a new name.

Of course I would strongly encourage you to upgrade to the 1.8 series.
But in the meantime, you can still take advantage of some of the new
functionality.

dan