[GoFigure2-developers] track flavors

[Kishore Mosaliganti]

Hi all,

Is there a track flavors like the celltype and subcellulartype for classifying tracks?

Thanks,
Kishore

[Arnaud Gelas]

Hi Kishore,

The concept of flavor does not exist in gofigure2, it was part of the first version. It was traded in favor of color (which are meant to be used for classification of any traces). Note that all traces (contours, meshes, tracks, lineages) have extra tables in the DB be able to add any kind of information. The set up is ready!

Arnaud

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[Kishore Mosaliganti]

Hi Arnaud,

If I add color to track, I can't sort them in the database table widget. I was thinking of a way to sort tracks. Is there a field in the import text file that I can fill into to get that information into db?

Your help is appreciated.

Thanks!

Kishore

[Arnaud Gelas]

Hi Kishore,

You can add a column to the table widget for the color (see what has been done for things like volume, or track length). But the case of the color you might have to synchronize it to the DB (?), unless you want something static.

You may also add this column (in the TW) in the db related column of a given trace.

HTH,
Arnaud

[Arnaud Gelas]

Hi all,

I have been working on merging the develop branch onto the master one, in order to make a new release of gofigure2.

I have already fixed several CMake issues related to the super build process, especially for Mac (10.8.5). There is still one issue regarding video (i.e. FFMPEG) and the super build.
Note that the packaging is also working with DragNDrop (I'll make it the default for Mac).

I would really appreciate if someone could give a try on windows the super build process to report/validate what has been done.

Cheers,
Arnaud
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[Kishore Mosaliganti]

Hi Arnaud,

I will try the build today on Windows and get back to you! I have a fresh Windows installation on my machine.

Best,

Kishore

[Kishore Mosaliganti]

I am waiting to get a Visual Studio installed on my computer before getting back to you.

Kishore

[Kishore Mosaliganti]

Hi Arnaud,

After the superbuild fixes, GoFigure2 compiled without warnings on my Ubuntu 13.10 machine. The following tests are failing:

      7 - ctkCollapsibleGroupBoxTest1 (Failed)
     13 - itkvtkMeshSplitterDanielssonImageFilterTest (Failed)
     15 - itkvtkMeshMergeConvexHullFilterTest (Failed)
     37 - qgoimageview2dTest (OTHER_FAULT)
     43 - qgotabimageview2dTest (OTHER_FAULT)
     45 - qgotabimageview3dwtTest (SEGFAULT)
     49 - ContourMeshContainerTest (SEGFAULT)
     59 - QGoSegmentationAlgoTest (Failed)

Are these tests working on your Mac?

Kishore

[Kishore Mosaliganti]

In the previous email, I meant GoFigure2 compiled in Superbuild mode and normal mode successfully. I built it against Boost 1.49.0.

However, in the superbuild, GoFigure2 is using ITK version 3.20.1 although the develop branch was moved to ITKv4 framework. Do you know why this is happening?

Kishore

[Arnaud Gelas]

Hi Kishore,

I have checked on debian, there is no stable package for itk4 yet; however there are for itk3.

It's still possible to use gofigure2 with itk3…

Note that I added one option to choose in between ITKv3 and ITKv4, see

https://github.com/gofigure2/GoFigure2/commit/fc49dc8d5868c614718f3823ecf1d0f9b515efc1

Best,

Arnaud