[Insight-developers] MetaIO Unknown meta-data bug

Tue Aug 21 13:18:12 EDT 2012

The patch in question doesn't change the MetaIO library itself.

I'm willing to push the changes through if you just go ahead and modify
the MetaIO source in ITK; that way you're testing it, and I can put the
changes in the SVN repo with some confidence.
--
Kent Williams norman-k-williams at uiowa.edu

On 8/15/12 10:25 AM, "Johnson, Hans J" <hans-johnson at uiowa.edu> wrote:

>Brad:  Kent Williams has write access to the main MetaIO library.
>Kent:  Please follow along, and when this is ready for submission, please
>push these changes to the MetaIO main library.
>
>Hans
>
>--
>Hans J. Johnson, Ph.D.
>hans-johnson at uiowa.edu
>Assistant Professor of Psychiatry
>University of Iowa Carver College of Medicine
>W278 GH, 200 Hawkins Drive
>
>Iowa City, Iowa 52242
>Phone:  319-353-8587
>
>
>
>
>
>
>
>-----Original Message-----
>From: Stephen Aylward <stephen.aylward at kitware.com>
>Date: Wednesday, August 15, 2012 9:57 AM
>To: Bradley Lowekamp <blowekamp at mail.nih.gov>
>Cc: ITK <insight-developers at itk.org>
>Subject: Re: [Insight-developers] MetaIO Unknown meta-data bug
>
>Hi,
>
>First - thanks!!!!   It is great to catch these lingering errors.
>
>Second - The ITK version of MetaIO is locked, and so it should not be
>possible for you to commit changes to it.   It is automatically
>updated by a robot whenever the main repo is changed.  The main repo
>is shared by ITK and VTK.
>
>Third - it is a bug we should fix.   My preference is to simply not
>write out a tag if there is no associated value.   Agreed?    Then, if
>a tag without a value is found, should it report an error, or just
>continue on?   I guess continue on, but not report that tag as set.
>Agreed?
>
>Thanks,
>Stephen
>
>On Wed, Aug 15, 2012 at 10:46 AM, Bradley Lowekamp
><blowekamp at mail.nih.gov> wrote:
>> Hello,
>>
>> I have a fix here for a bug I have encountered with the MetaImageIO:
>>
>> http://review.source.kitware.com/#/c/6998/
>>
>>
>> The question I have to the MetaImage folk, is if this is just a problem
>>with
>> the ITK ImageIO or does a fix in the MetaIO library need to be made. I
>>took
>> the path of least resistance and just fixed it in ITK's ImageIO.
>>However,
>> the fact that passing an empty string to the "AddUserField" method
>>results
>> in a meta image header file which can not be read back is concerning. I
>> unfortunately I don't really care to dive into the metaio library unless
>> needed.
>>
>> The error from the test I wrote:
>>
>> WARNING: In
>>
>>/nfs/Users/blowekamp/src/ITK-gerrit/Modules/IO/Meta/src/itkMetaImageIO.cx
>>x
>>,
>> line 633
>> MetaImageIO (0x102005400): Unsupported metaData item
>> AnUnsuportedComplexInitalized of type St7complexIfEfound, won't be
>>written
>> to image file
>>
>> DimSize required and not defined.
>> MetaObject: Read: MET_Read Failed
>> MetaImage: M_Read: Error parsing file
>> MetaImage: Read: Cannot parse file
>> ITK test driver caught an ITK exception:
>>
>> itk::ExceptionObject (0x100e00790)
>> Location: "unknown"
>> File:
>>
>>/nfs/Users/blowekamp/src/ITK-gerrit/Modules/IO/Meta/src/itkMetaImageIO.cx
>>x
>> Line: 87
>> Description: itk::ERROR: MetaImageIO(0x102006800): File cannot be read:
>> foo.mha for reading.
>> Reason: Unknown error: 0
>>
>> The file header:
>>
>> ObjectType = Image
>> NDims = 2
>> BinaryData = True
>> BinaryDataByteOrderMSB = False
>> CompressedData = False
>> TransformMatrix = 1 0 0 1
>> Offset = 0 0
>> CenterOfRotation = 0 0
>> ElementSpacing = 1 1
>> ASimpleFloatInitalized = 1.23456
>> AnUnsuportedComplexInitalized =
>> DimSize = 32 32
>> AnatomicalOrientation = ??
>> ElementType = MET_USHORT
>> ElementDataFile = LOCAL
>>
>> Thanks for feedback,
>> Brad
>>
>> ========================================================
>>
>> Bradley Lowekamp
>>
>> Medical Science and Computing for
>>
>> Office of High Performance Computing and Communications
>>
>> National Library of Medicine
>>
>> blowekamp at mail.nih.gov
>>
>>
>>
>>
>
>
>
>--
>
>==============================
>Stephen R. Aylward, Ph.D.
>Senior Director of Operations - North Carolina
>Kitware, Inc. - North Carolina Office
>http://www.kitware.com
>stephen.aylward (Skype)
>(919) 969-6990 x300
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