[fedora-medical] Last updates

Mario Ceresa mrceresa at gmail.com
Wed May 22 11:25:57 UTC 2013


Thanks, Andreas, for you mail.

Sorry if I answer only now: indeed collaboration between the two medical
groups is very welcome: I personally have studied/ported Debian's patches
in a number of cases :)

The wiki page is more like a roadmap for me than a list of packaged medical
software. How do you plan to automatically generate the pages in Debian?
Maybe we have a list of packages by group somewhere and I don't know?

On another side, I had some news from Seg3D mantainers on  packaging
issues, but I'm not sure if they are willing to accept patches related to
that (I sent a separate mail to the list for that), so I'm a bit puzzled...
What do you usually do in Debian in these situations?

Thanks and regards,

Mario




On 16 May 2013 11:07, Andreas Tille <andreas at an3as.eu> wrote:

> Hi Mario,
>
> nice to hear about this success in Fedora medical SIG
>
> On Tue, May 14, 2013 at 12:24:08PM +0200, Mario Ceresa wrote:
> > Dear all,
> > several important changes happened recently in fedora medical. The
> > following packages were added:
> >
> > * InsightToolkit (ITK)- Kitware flagship medical image analysis library
> > * Orthanc - Lightweight PACS
> > * octave-dicom - Dicom package for octave
> > * gdcm bumped up to last release
> >
> > Especially ITK was a big jump after almost 4 years of review! It now
> > unblocks a wide range of medical imaging software such as:
> >
> > * elastix - image registration
> > * GinkoCAD - DICOM viewer
> > * ITKSnap - Segmentation
> > * vmtk - Vascular modeling kit
>
> Feel free to have a look into the available Debian packaging if this
> might be helpful.  (I like to repeat the hint that you can find all
> medical imaging related applications in Debian here[1] while tools to
> develop medical imaging applications are listed here[2].)
>
> > * Seg3D 2 - Segmentation
> > * msvtk - Multi-scale visualization toolkit
>
> These are good hints also for Debian.  We should put these on our todo
> list.
>
> > On another side, Orthanc enables Fedora to act as a PACS to interchange
> > dicom images between several peers.
> >
> > I think it would be nice to concentrate now in having a working and
> > integrated dicom viewer (GinkoCAD) and segmentation program (Seg3D2 or
> > ITKSnap).
> >
> > Maybe, with some effort, we might even propose three features for one of
> > the next fedora releases:
> >
> > * "medical image platform clinic" which would include:
> > a) improved dicom compatilibity (already done with dcmtk, gdcm,
> > octave-dicom)
> > b) pacs support (orthanc, already done) + GinkoCAD
> > c) InsightToolkit (already done)
> > d) segmentation tools (ITKSnap + Seg3d 2)
> >
> > * "medical image platform research" which would include:
> > a) 3D slicer
> > b) registration tools (elastix + ants)
> > c) statistical shape models (statismo + shapeworks)
> > d) vascular analysis (vmtk)
> > e) guided surgery (openigtlink, already done + IGSTK)
> >
> > * "biomechanical platform" which would include:
> > a) Meshing (Biomesh3d, cleaver, stellar)
> > b) FEM code (Elmer, Kratos, OpenPalm, OpenFOAM)
> > c) Salome modeler
> >
> > An updated page with current status of all these packages is:
> > https://fedoraproject.org/wiki/Medical_Imaging
>
> Remark: In Debian Med (and other Blends - SIGs in Fedora jargon) we
> realised that keeping Wiki pages up to date costs some effort.  So we
> found a solution to render these pages (like [1] or [2]) automatically.
> We are currently trying to improve this in a GSoC project.  May be you
> might consider doing something similar in next years GSoC?
>
> > Probably some of those packages are already included in Debian/Ubuntu and
> > we can contact our fellow packagers for help with patches.
>
> Ahh - I was inline answering.  Now reading this I think this question
> was answered above and I'd be happy to help in case of questions.
>
> > Is there anyone interested in all of this?
>
> I'm definitely interested (even if I do not use Fedora, sorry).
>
> Kind regards
>
>        Andreas.
>
> [1] http://debian-med.alioth.debian.org/tasks/imaging
> [2] http://debian-med.alioth.debian.org/tasks/imaging-dev
>
> --
> http://fam-tille.de
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