[ITK] [ITK-users] itk mhd header

[Dženan Zukić]

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: http://itk-insight-users.
>> 2283740.n2.nabble.com/itk-mhd-header-tp7589210.html
>> > Sent from the ITK Insight Users mailing list archive at Nabble.com.
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