[MINC-users] retrieve coregistration

[Robert D. Vincent]

Hi,

So the xspace and yspace values have changed slightly, but the zspace
origin has been changed dramatically.

If you do the following command:

minc_modify_header -dinsert zspace:start=48.3 ratio_original.mnc

Do the files line up correctly?



On Thu, Sep 15, 2016 at 8:24 AM, Jérôme Redouté <redoute at cermep.fr> wrote:

> Hi Robert,
> here is the output of mincinfo
>
> file: CHAPO06620_F15_04_DYN_avg.mnc
>> image: signed__ short -32768 to 32767
>> image dimensions: xspace zspace yspace
>>     dimension name         length         step        start
>>     --------------         ------         ----        -----
>>     xspace                    176          0.6        -52.8
>>     zspace                    164    -0.601562         48.3
>>     yspace                    208    -0.601562      63.8531
>>
>>
>> file: ratio_original.mnc
>> image: signed__ short -32000 to 32000
>> image dimensions: zspace yspace xspace
>>     dimension name         length         step        start
>>     --------------         ------         ----        -----
>>     zspace                    164    -0.601562           -0
>>     yspace                    208     0.601562     -62.2617
>>     xspace                    176          0.6        -52.5
>>
>
> PS: imgratio is a tool from Turku's PET center
>
> Jerome
>
>
>
>
> Le 15/09/2016 à 12:23, Robert D. Vincent a écrit :
>
>> Hi Jérôme,
>>
>> I don't know the "imgratio" tool, is it possible it is changing or
>> deleting
>> the voxel-to-world transform? What is the output of mincinfo on the two
>> mnc
>> files?
>>
>> If the basic sampling grid hasn't changed, you should be able to use
>> minc_modify_header to put the original voxel-to-world transform back into
>> the ratio.mnc header.
>>
>>      -bert
>>
>> On Thu, Sep 15, 2016 at 5:59 AM, Jérôme Redouté <redoute at cermep.fr>
>> wrote:
>>
>> Hi all,
>>>
>>> I need your help concerning a coregistration loss problem during image
>>> processing.
>>>
>>> I have a mnc PET 4D volume that I need to process in ECAT format.
>>>
>>> My processing steps are as follows:
>>>
>>> DYN.mnc => ecat with minctoecat
>>>
>>> ecat processing (imgratio) to generate a ratio image => ratio.v
>>>
>>> convert back to minc using ecattominc => ratio.mnc
>>>
>>> my problem is that ratio.mnc is not in alignment with DYN.mnc
>>>
>>>
>>> How should I correct ratio.mnc header to bring this alignment back?
>>>
>>> Thanks for your help
>>>
>>> Jerome
>>>
>>> --
>>> ==================================================================
>>> Jérôme Redouté
>>> Ph.D. - Ingénieur de Recherche - Université Claude Bernard - Lyon1
>>> CERMEP - Imagerie du vivant
>>> 59 Bd Pinel. 69677 Bron - FRANCE
>>> tel : 33 (0)4 72 68 86 18 (bureau)
>>> tel : 33 (0)4 72 68 86 00 (standard)
>>> fax : 33 (0)4 72 68 86 10
>>> ==================================================================
>>>
>>>
>>> _______________________________________________
>>> MINC-users at bic.mni.mcgill.ca
>>> http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users
>>>
>>> _______________________________________________
>> MINC-users at bic.mni.mcgill.ca
>> http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users
>>
>>
>
> --
> ==================================================================
> Jérôme Redouté
> Ph.D. - Ingénieur de Recherche - Université Claude Bernard - Lyon1
> CERMEP - Imagerie du vivant
> 59 Bd Pinel. 69677 Bron - FRANCE
> tel : 33 (0)4 72 68 86 18 (bureau)
> tel : 33 (0)4 72 68 86 00 (standard)
> fax : 33 (0)4 72 68 86 10
> ==================================================================
>
>
> _______________________________________________
> MINC-users at bic.mni.mcgill.ca
> http://www.bic.mni.mcgill.ca/mailman/listinfo/minc-users
>