[Rtk-users] The preprocessing for .bmp and .tif images

[Chao Wu]

Then it probably means the pixel size RECORDED IN TIF is 1 mm, or the pixel
size is NOT SET and then by default of itk/rtk 1 mm...
By the way with the latest version of rtk you can overwrite the projection
image metadata (including pixel size) with command line argument. You can
try to put --neworigin 0.127 and see what happens.

Regards,
Chao


2015-06-16 19:42 GMT+02:00 Guangming Zang <guangming.zang at kaust.edu.sa>:

> Thanks Chao and Simon.
> Yes, my .tif images are 16 bit depth( uint16 ) , i think it is the same
> with unsigned short.
> Another question related to  geometry is that, several months ago, i asked
> the tif file geometey settings, and Chao replied and kindly pointed that
> <http://webcache.googleusercontent.com/search?q=cache:1KHuL-ayALwJ:public.kitware.com/pipermail/rtk-users/2014-November/000621.html+&cd=1&hl=en&ct=clnk&gl=sa>
> i should be careful about image's dpi
> But, i still can not understand why it is related to image's dpi.
>  For example, my tif images' information and some geometry information
> from scanner are like this:
> * 1916*1536 dimensions *
> *  pixelsize 0.127*
> *  SDD  983*
> *  SID    413*
> The interesting part is that, when using  rtksimulatedgeometry  command ,  i
> set all parameters identical to physical distance (mm). it does not show
> anything, not matter care about dpi or not(suppose   rtkfdk command after
> that  is correct). i.e.,
> 1. rtksimulatedgeometry -n 360 -o geometry.xml   --sdd="983"
> --sid="413"    --proj_iso_x="-121.666" --proj_iso_y="-97.536"
>
> or change the sid to 2/3 *sid because of  300 dpi instead of 200 dpi
> 2. rtksimulatedgeometry -n 360 -o geometry.xml   --sdd="655.3333"
> --sid="413"    --proj_iso_x="-121.666" --proj_iso_y="-97.536"
>
>
> But when i set the *sdd *divide by pixelsize(0.127),  and other
> parameters like this, it reconstructed a  volume seems correct(at least
> show the whole object)
>
> 3. rtksimulatedgeometry -n 360 -o geometry.xml   --sdd="7740.15748"
> --sid="413.423889"    --proj_iso_x="-958" -proj_iso_y="-768"
>
> so would you please help me to find what happened??
>
> Sorry , again for this long letter. :(
>
> Thanks very much.
>
> With my Regards
> Guangming
>
>
>
>
>
> *Guangming Zang (Alex)*
> *King Abdullah University of Science and Technology(KAUST)*
> *University of Chinese Academy of Sciences(UCAS)*
>
>
>
>
> 2015-06-16 17:43 GMT+03:00 Simon Rit <simon.rit at creatis.insa-lyon.fr>:
>
>> Hi,
>> This is correct if your tif is of type "unsigned short".
>> Simon
>>
>> On Tue, Jun 16, 2015 at 4:41 PM, Chao Wu <wuchao04 at gmail.com> wrote:
>> > Look at http://www.openrtk.org/Doxygen/dot_inline_dotgraph_16.png
>> > For tif and bmp I think they go through the left most path (except for
>> the
>> > Elekta branch).
>> >
>> >
>> > 2015-06-16 15:47 GMT+02:00 Guangming Zang <guangming.zang at kaust.edu.sa
>> >:
>> >>
>> >> Hi RTK community,
>> >> Sorry to bother you again,  but i was wondering for the projections in
>> the
>> >> format of .bmp and .tif files. (e.g., say the bmp images  range from
>> >> [0,255], tif images range from [1,521]) . what are the next steps and
>> >> preprocessing pipelines in RTK for bmp and tif ?? I look into the
>> >> rtkProjectionsReader.txx, however, for me, i think it does not explain
>> >> clearly.
>> >> So anyone can help me?
>> >>
>> >> with my Regards
>> >> Guangming
>> >>
>> >> Guangming Zang (Alex)
>> >> King Abdullah University of Science and Technology(KAUST)
>> >> University of Chinese Academy of Sciences(UCAS)
>> >>
>> >>
>> >>
>> >>
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>
>
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