[ITK] [ITK-users] itk mhd header

Fri Sep 16 08:16:52 EDT 2016

You could turn it into a valid MHD file by manually modifying the header to
make it match a valid one, e.g. the one attached.

Regards

On Fri, Sep 16, 2016 at 12:26 AM, Swetha Sharma <swetha.bsharma at gmail.com>
wrote:

> 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: 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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>>
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