[Rtk-users] use RTK to perform CBCT reconstruction of short scan

[Jan Hoskovec]

Hello,

rtkparkershortscanweighting is indeed for preprocessing the projection
data. I don't think there is a tutorial for it, if none of the scripts
mentioned on wiki.openrtk.org matches your case (you'd better re-check
that).

To generate a geometry file, you will need to run
rtksimulatedgeometry. Typing "rtksimulatedgeometry -h" should provide
enough information, but I suggest you read
http://www.creatis.insa-lyon.fr/~srit/geometry.pdf should you be
confused about the geometric conventions.

The -p and -r options specify the input file(s). The tool is designed
to be able to treat multiple files at the same time, so you specify
the directory (-p) and a file name pattern (-r) separately. If you
have just one file in your current working directory that you want to
treat, then you can type "-p . -r <nameofthefile>". The -o option is
quite straightforward, it's the name of the output image.

Anyhow, all RTK command line binaries have a reasonably detailed help
available if you launch them with the "-h" option.

I hope these little hints will help you to find your way out. Don't
worry, my first reconstruction with RTK was just about as chaotic.

Regards,

Jan

2014/1/15 Langechuan Liu <llgc at umich.edu>:
> Hello,
>
> I am new to RTK. Thanks to the creators for building such a great toolset.
>
> I found information about RTK because I was trying to perform a CBCT recon
> based on a short scan obtained from Varian OBI.
>
> In my specific case, I have 372 projection images (both in the original
> Varian .hnd format, and raw projection format converted with plastimatch)
> scanned over 220 degrees of the phantom.
>
> I have followed the instructions on the wiki page and successfully installed
> RTK. However I could not find much documentation regarding the parker short
> scan weighting tool. I did find some prompts after typing into command line:
>
> user at Cluster:~/RTK/RTK-bin/bin$ ./rtkparkershortscanweighting
> ./rtkparkershortscanweighting: '--geometry' ('-g') option required
> ./rtkparkershortscanweighting: '--path' ('-p') option required
> ./rtkparkershortscanweighting: '--regexp' ('-r') option required
> ./rtkparkershortscanweighting: '--output' ('-o') option required
>
> Judging from the name, I suppose this rtkparkershortscanweighting tool is to
> preprocess the projection data, but I am not sure. I am also puzzled at what
> I should specify for each of the options, especially the geometry option
> (how should I generate the geometry file, etc). I googled but to no avail.
>
>
> Could somebody direct me to a tutorial, or shed some light on the usage of
> the command line tool?
>
> Thanks very much!
>
> Best Regards,
> Patrick L. Liu
>
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