Hi Harsha,

Use case datasets are not maintained within the GitHub repo. We now have a data portal instead. Please check out the below slides 20-23 from the below link for the steps to get a use case dataset.

https://docs.google.com/presentation/d/1UGFSAuRAaNFgDdZxyVJ3ePE_g5O8Skbx1n2nBrHFaig/edit?usp=sharing

thanks and best regards
Shireen


------------------------------------------
Shireen Elhabian, M.Sc., Ph.D.
Research Assistant Professor
School of Computing
Scientific Computing and Imaging Institute
University of Utah
WEB 2815
72 Central Campus Drive, Salt Lake City, UT, 84112
Phone (801) 587-3206
Fax (801) 585-6513
Home Page: http://www.sci.utah.edu/~shireen

On Nov 19, 2019, at 2:19 PM, Harsha Irugal Bandara <harsha.irugal@gmail.com> wrote:

Hi Shireen,

Is the femur example included with the new release? I only have access to the ellipsoid example inside the 'Examples\Python' folder.

Kind regards,

Harsha 

On Tue, 19 Nov 2019 at 13:01, Shireen Elhabian <shireen@sci.utah.edu> wrote:

Hi Harsha,

Yes … Please check out the femurs example. It demonstrate the grooming steps required for converting surface meshes to binary segmentations.

thanks and best regards
Shireen


------------------------------------------
Shireen Elhabian, M.Sc., Ph.D.
Research Assistant Professor
School of Computing
Scientific Computing and Imaging Institute
University of Utah
WEB 2815
72 Central Campus Drive, Salt Lake City, UT, 84112
Phone (801) 587-3206
Fax (801) 585-6513
Home Page: http://www.sci.utah.edu/~shireen

On Nov 19, 2019, at 12:16 PM, Harsha Irugal Bandara <harsha.irugal@gmail.com> wrote:

Hi Shireen,

Thank you for your reply. The Python ellipsoid example works beautifully with the sample data. My data set is currently in '.vtk' format - Is there a way to convert them to '.nrrd' before running the python scripts?

Thanks again,

Harsha

On Sun, 17 Nov 2019 at 11:25, Shireen Elhabian <shireen@sci.utah.edu> wrote:

Hi Harsha,

The shell scripts will be deprecated very soon and as of now, they might not be compatible any more with the latest release. I would try out the python scripts in Examples/Python. You could start with the ellipsoid example and adapt it to your dataset.

thanks and best regards
Shireen


------------------------------------------
Shireen Elhabian, M.Sc., Ph.D.
Research Assistant Professor
School of Computing
Scientific Computing and Imaging Institute
University of Utah
WEB 2815
72 Central Campus Drive, Salt Lake City, UT, 84112
Phone (801) 587-3206
Fax (801) 585-6513
Home Page: http://www.sci.utah.edu/~shireen

> On Nov 14, 2019, at 2:38 PM, Harsha Irugal Bandara <harsha.irugal@gmail.com> wrote:
>
> Hi Shireen,
>
> I'm attempting to pre-process a few femur samples by running them through the FullPipelineRunMeshtoDT.sh script and having some trouble with it (I'm using a windows 10 machine, and have installed the latest shapeworks release)  . Attached is an image of the bash window error messages I've been getting
>
> Main issue seems to be that the script is looking for a "setup.txt" file that doesn't exist.
>
> Would you be able to point me in the right direction to troubleshoot this issue?
>
> Thanks and kind regards,
>
> Harsha Bandaralage, M. Sc.
> Biomechanical Engineer
> Division of Orthopedics
> Rady Children's Hospital - San Diego
>
> <shapeWorks_1.JPG>