[ITK] [ITK-users] itk mhd header

[Swetha Sharma]

Thank you dzenanz

On Fri, 16 Sep 2016, 01:06 Dženan Zukić, <dzenanz at gmail.com> wrote:

> Hi Swetha,
>
> since NIFTI has a binary header, I guess someone confusingly dumped NIFTI
> header in text format and renamed that .mhd. That is neither valid MHD nor
> NIFTI. In short, it is a corrupted file.
>
> Regards,
> Dženan
>
> On Thu, Sep 15, 2016 at 9:11 AM, Swetha Sharma <swetha.bsharma at gmail.com>
> wrote:
>
>> I am trying to read the file using an application outside itk.it can
>> read the regular .mhd but it failed when I input this.
>>
>> When I investigated the header I found these tags hence the post
>>
>> On Thu, 15 Sep 2016, 18:37 Lowekamp, Bradley (NIH/NLM/LHC) [C], <
>> blowekamp at mail.nih.gov> wrote:
>>
>>> MetaIO does not have many formal fields. Those that are defined are here:
>>>
>>> https://itk.org/Wiki/ITK/MetaIO/Documentation
>>>
>>> MetaIO Image from ITK also writes out the ITK's Meta Data Dictionary
>>> along with the image. The dictionary can contain arbitrary information.
>>> These fields looks like they came from a NIFT file:
>>>
>>> https://brainder.org/2012/09/23/the-nifti-file-format/
>>>
>>> It is generally more productive to learn how to use existing libraries
>>> as opposed to hacking your own for IO. This help ensure that everyones
>>> files are compatible and usable.
>>>
>>> HTH,
>>> Brad
>>>
>>> > On Sep 15, 2016, at 3:26 AM, swetha <swetha.bsharma at gmail.com> wrote:
>>> >
>>> > Hi,
>>> >
>>> >  I have this mhd file header
>>> >
>>> > ObjectType = Image
>>> > NDims = 3
>>> > BinaryData = True
>>> > BinaryDataByteOrderMSB = False
>>> > CompressedData = False
>>> > TransformMatrix = 1 0 0 0 1 0 0 0 1
>>> > Offset = 0 0 0
>>> > CenterOfRotation = 0 0 0
>>> > AnatomicalOrientation = RAI
>>> > ElementSpacing = 1 1 1
>>> > bitpix = 8
>>> > cal_max = 256
>>> > cal_min = 0
>>> > datatype = 2
>>> > dim[0] = 4
>>> > dim[1] = 480
>>> > dim[2] = 480
>>> > dim[3] = 256
>>> > dim[4] = 1
>>> > dim[5] = 1
>>> > dim[6] = 0
>>> > dim[7] = 0
>>> > dim_info =
>>> > intent_code = 0
>>> > intent_p1 = 1.86143e+034
>>> > intent_p2 = 0
>>> > intent_p3 = 0
>>> > pixdim[0] = 0
>>> > pixdim[1] = 1
>>> > pixdim[2] = 1
>>> > pixdim[3] = 1
>>> > pixdim[4] = 0
>>> > pixdim[5] = 0
>>> > pixdim[6] = 0
>>> > pixdim[7] = 0
>>> > qform_code = 0
>>> > qoffset_x = 0
>>> > qoffset_y = 0
>>> > qoffset_z = 0
>>> > quatern_b = 0
>>> > quatern_c = 0
>>> > quatern_d = 0
>>> > scl_inter = 0
>>> > scl_slope = 1
>>> > sform_code = 0
>>> > slice_code =
>>> > slice_duration = 0
>>> > slice_end = 0
>>> > slice_start = 0
>>> > srow_x = 0 0 0 0
>>> > srow_y = 0 0 0 0
>>> > srow_z = 0 0 0 0
>>> > toffset = 0
>>> > vox_offset = 0
>>> > xyzt_units =
>>> > DimSize = 480 480 256
>>> > ElementType = MET_SHORT
>>> > ElementDataFile = usg2_-2.raw
>>> >
>>> > I want to know what the tags mean so that i can write a function to
>>> parse
>>> > and display the image.
>>> > -swetha
>>> >
>>> >
>>> >
>>> >
>>> > --
>>> > View this message in context:
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