[MINC-users] xv error (mincview) on Ubuntu / make_model error

[Lisa F. Akiyama]

Hi Andrew,

Thanks for all your tips.

>Displaying minc files
I was simply trying to use mincview because it was stated in a (probably
outdated) tutorial I had found.
I tried using mincpik, but got a strange string of odd symbols and
alphabets.
When I ran display, the ImageMagick window opened and I was able to select a
file, but got an error saying:

> display: no decode delegate for this image format `15331.mnc' @
> error/constitute.c/ReadImage/532.
>

> make_model
Are there minc commands to create these mask and headmask files?


Thank you.


Best,
Lisa




On Wed, Feb 9, 2011 at 5:47 PM, Andrew Janke <a.janke at gmail.com> wrote:

> Hi Lisa,
>
> On 10 February 2011 09:25, Lisa F. Akiyama <lrisa87 at uw.edu> wrote:
> > I am using MINC on Ubuntu 10.10.
> > I am facing two problems at the moment:
> >
> > 1) I get an error saying that the xv command is missing when I try to run
> > mincview:
> >
> > todd at neptune-ubuntu:~/Desktop/SF6-noneck-notcoreg/mritotal$ mincview
> >> 6mth_ucla_little_endian_clean.mnc
> >> Loading
> >>
> slices...........................................................................................................................................Done
> >> xv: Command not found.
>
> mincview is a bit of MINC history that has been left in if only
> because some users still want it. Sadly the xv licence prohibits
> people from distributing modified versions and thus it is not included
> in many linux distributions such as Ubuntu.  It was for this reason
> that I wrote mincpik using imagemagicks convert+display functions.
>
> Is there is a specific reason for wanting to use mincview?  all it
> does is display a set of slices that is probably better done with
> mincpik, if you just want to view data I'd recommend register or
> Display.  Two other old warhorses that seem to also just keep on
> going.
>
> > Is there a need for me to install xv following steps such as those listed
> > here?: http://www.halibutdepot.org/xv/building_xv_on_ubuntu.html
>
> Well that certainly is the easiest way to get xv to work. :(
>
> > 2) When running make_model, I get errors saying that it was unable to
> open
> > the ...mask.mnc files.
> > No mask.mnc files are created (only dxyz.mnc's and blur.mnc's have been
> > created).
>
> make_model requires that you have your model.mnc, model_headmask.mnc
> and model_mask.mnc all in the same folder so you should have these
> three files:
>
>   6mth_ucla_little_endian_clean.mnc
>    6mth_ucla_little_endian_clean_mask.mnc      (mask of cortical
> structures)
>   6mth_ucla_little_endian_clean_headmask.mnc   (mask of the whole head)
>
> at which point you can then say:
>
>   make_model 6mth_ucla_little_endian_clean
>
> and use your model with mritotal.
>
>
> --
> Andrew Janke
> (a.janke at gmail.com || http://a.janke.googlepages.com/)
> Brisbane->Australia    +61 (402) 700 883
> _______________________________________________
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>