[MINC-development] micopy_all_var_values dies if non-standard variables are present in MINC files

[Rick Hoge]

Thanks a lot for the suggestion - it turns out I did have an old (but 
not that old) version of the minc libraries.  These files work fine 
with the current version.  Also appreciate the info on the dimension 
vars - this has always been a bit mysterious to me but is making more 
sense...

Rick

On Feb 3, 2004, at 10:28 PM, Peter NEELIN wrote:

> Hi Rick,
>
> On Fri, 23 Jan 2004, Rick Hoge wrote:
>
>> For a while we've been motivated to add 'custom' variables to MINC
>> files to embed information about the experiment or analysis in a
>> convenient way.  It seems though that non-standard variables prevent
>> some of the MINC tools from running.
>
> They shouldn't. That is one of the ideas behind minc. It should be
> extensible, and as long as you don't use any standard variable names, 
> you
> should be okay. (One caution - I don't know if variables that are 
> indexed
> by image dimensions are always handled properly by programs that change
> the dimensions, like mincresample.)
>
> Anyway, I tried resampling the file fileWithNewVariable.mnc and it 
> worked
> fine on the SGIs in the BIC. Do you have an older version of 
> mincresample?
> Can you trace the problem down? The fact that it dies without an error
> makes it hard to diagnose - the MINC package entry point just tells you
> that a NetCDF function failed when called by the minc function
> micopy_all_var_values, but NetCDF obviously did not report the error 
> as it
> should have. Are you certain that you have not simply run out of disk
> space (or quota)? NetCDF does have a habit of swallowing that sort of
> error.
>
> You could try compiling a debugging version of mincresample and trace 
> it
> to find out where the problem occurs.
>
> Are you using NetCDF 3.5? I think that it does a better job of 
> reporting
> errors than 3.2.
>
> The only comment that I would have about your file is that you do not 
> need
> to have the dimension variables (xspace, etc) indexed by anything if 
> the
> spacing is regular. If you are not going to fill in the information, 
> then
> you should not have the indexing. Right now, the information is
> contradictory and so your file is strictly speaking not valid.
>
> For the imagemin/max variables, you do not need to have them indexed by
> zspace if you are going to scale all of the images the same way.
>
>             Peter
> ----
>             Peter Neelin (neelin@bic.mni.mcgill.ca)
>
>
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