[Insight-developers] MGHImageIO bug fix, need to get the fist propagated to both ITK and Slicer

[Williams, Norman K]

I'll submit a pull request on Slicer.  The MGHImageIO class has gone
through other changes in ITK; I unified the compressed/uncompressed writer
code in single functions for readability and consistency's sake. Do you
want me to bring Slicer into sync with ITK, or should I just submit the
origin-writing patch?
--
Kent Williams norman-k-williams at uiowa.edu






On 9/20/13 6:04 PM, "Jean-Christophe Fillion-Robin"
<jchris.fillionr at kitware.com> wrote:

>Hi Matt, Kent,
>
>Thanks for letting the Slicer community know about the fix.
>
>For the coming Slicer release, I will just cherry pick that specific
>change. Then, we could think about using the ITK remove modules. I just
>created an issue to keep track of it. See [1]  Could you, Hans or Matt
>take care of submitting a pull request on Slicer
> ?
>
>
>Thanks
>
>Jc
>
>[1] http://na-mic.org/Mantis/view.php?id=3410
>
>
>On Fri, Sep 20, 2013 at 6:25 PM, Matt McCormick
><matt.mccormick at kitware.com> wrote:
>
>Hi Kent,
>
>My vote is of course for B) -- we can add it to ITK's release branch
>soon after, and Slicer can use the updated release branch SHA.
>
>Thanks,
>Matt
>
>On Fri, Sep 20, 2013 at 9:25 PM, Williams, Norman K
><norman-k-williams at uiowa.edu> wrote:
>> If I was just proposing a change to ITK this would be a bit easier --
>>I'd
>> just go through ITK's gerrit review system.
>>
>> As it is this has a few more moving parts.
>>
>> The problem was that MGHImageIO was writing out Image origins
>>incorrectly.
>> Eun Young Kim discovered this while using SimpleITK within Slicer to
>>read
>> and write MGZ files.
>>
>> I re-wrote the 'WriteHeader' code where it converts the origin from ITK
>> conventions to FreeSurfer conventions, so the conversion code on the
>>Write
>> side matches that on the Read side.
>>
>> But getting this incorporated back into Slicer and ITK has more than one
>> step.
>>
>> ITK:
>> 1. Merge the pull request into the Slicer/itkMGHImageIO repository on
>> github. The pull request is here:
>> https://github.com/Slicer/itkMGHImageIO/pull/3
>> 2. Get a topic through ITK Gerrit to update the SHA to match the
>>revision
>> of my change.
>>
>> SLICER:
>>
>> Slicer has an older version of MGHImageIO than the one used by ITK; I
>> don't know if Slicer uses this and turns on the MGHImageIO remote module
>> when it builds ITK.
>> A) If Slicer uses the old code in Slicer/Libs/MGHImageIO, then this
>>should
>> be replaced by the code in the Github repository above.
>> B) If Slicer uses the ITK version via the ITK remote module for
>> itkMGHImageIO, then Š well there's a bit of a problem, as when the fix
>> gets propogated through into ITK, it will be at the Development head for
>> ITK, and be some time before it's part of a ITK Minor version release.
>> Slicer no doubt picks a particular ITK version and sticks with it until
>>a
>> newer version comes along with sufficient new functionality and bug
>>fixes
>> to justify re-validating ITK all over again with Slicer.
>>
>> So I have the fix, I just need to know what I need to do for it to be
>> pushed where it needs to be.
>>
>>
>> --
>> Kent Williams norman-k-williams at uiowa.edu
>>
>>
>>
>>
>>
>>
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