20 Apr, 2015

1 commit

  • 6b7a5567   Improvements to watershed segmentation tool (algorithm, connectivity, gui to config). ... Browse File » 
    It adds:

- A configuration GUI
    - To choose the algorithm (watershed and watershed ift).
    - connectivity.

- Option to use WW&WL

- Runs the 3D version in another process.

Created a class to store watershed configs

Added the option to use or not the ww&wl

watershed now have its own cursor object

unsubscribing pubsubs from watershed when swap to other style

gui description

Added a gui to set some configs from watershed

Removed set operation from watershed style

Not applying border detection (gradient) when using watershed ift

runing 3d watershed using multiprocessing

Little improvements

added a icon to the watershed configuration
    Thiago Franco de Moraes
     

02 Mar, 2015

1 commit

27 Feb, 2015

3 commits

26 Feb, 2015

1 commit

24 Jun, 2014

1 commit

23 Jun, 2014

1 commit

  • c180da8d   This implements the segmentation watershed algorithm to InVesalius. ... Browse File » 
    Watershed is a very useful algorithm to segment brain, for example. The
implementation used is from scikit image. Before the segmentation, a
ww&wl is applied and a morphological gradient is applied, to extract the
borders of the image. It can be used to 2D slices or to all slices (via
expand button). It was created a new slice interaction style: WaterShedInteractorStyle.

Starting to using watershed

Added suport to erase a mark

Applying threshold before starting watershed mode

Watershed 3D (only markers from axial)

Watershed 3D

Marking the mask as edited when using watershed tool

Fixed the problem of not deleting watershed interactor style

Not flushing buffer (it's not necessary)

Not hidding wx's cursor when marking to watershed

Removed the vtk colour part from watershed style

Removed the vtk colour part from watershed style

micro-optimization

Removing aux matrix when opening a new dicom dir

not showing watershed markers when mask is hidden

Only doing watershed when user marks back and foreground.

Reloading all mask slice when watershed is expanded

showing (hidding) watershed marks when enabled (disabled)

cleaning undo redo when watershed is applied (TODO create undo redo to watershed)

Interface to select watershed operation
    Thiago Franco de Moraes
     

09 Apr, 2014

1 commit

25 Oct, 2013

2 commits

18 Apr, 2013

1 commit

  • 855d18d9   Makes the measure mark proportional to image spacing ... Browse File » 
    * Added the parameter radius "Add measurement point" pubsub message. This
  parameter is proportional the image spacing.
* Added PROP_MEASURE to constants.py. This constant is used to set the
  proportion the image spacing.

The measure mark is proportional to the image spacing

Loading measures with circlerepresentation proportional to the image spacing

Adding measures in polydata with circlerepresentation proportional to the image spacing

Added PROP_MEASURE to constants.py
    Thiago Franco de Moraes
     

28 Mar, 2013

1 commit

  • 8d9b272f   Created InteractorStyles to handle the interactivity in the viewer_slice ... Browse File » 
    The idea is each interactivity and functionality being implemented as
InteractorStyles. In this branch I created InteractorStyles to handle:
zoom, WW & WL, edition, pan, spin, linear measure and angular measure.

I created a pattern, each InteractorStyle receives as parameter only a
viewer_slice. And a InteractorStyle may create a SetUp and a CleanUp
methods. The SetUp method runs after the creation of the InteractorStyle
and can be used to prepare the ground before the InteractorStyle be
used. The CleanUp method can be used to cleans and unset anything used
during the InteractorStyle use.

This idea can be used in the future to give InVesalius the feature to
run pluggins.

Squashed commit of the following:

commit c48e9290dc91009cf00dc3def692e51c6cebe3e0
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Thu Mar 28 09:18:11 2013 -0300

    Starting with the ww and wl text hidden

commit 5c9a305f4c9821327fb47594a4833f0def899be8
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Wed Mar 27 17:02:37 2013 -0300

    Created a protocol to setup and cleanup when a style is setted

commit b557c29890e70ba1337cd59bf54b29c7f1d2f11e
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Wed Mar 27 15:49:04 2013 -0300

    Cleaning unneeded code from data/styles.py

commit 46f4452a1b5c39e826de86c383345df72eeeb9b1
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Wed Mar 27 15:41:41 2013 -0300

    Cleaning code related to vtk events from viewer_slice

commit 4a7add3a2360df5320a9c7c78d49e533c61997c4
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Wed Mar 27 15:23:19 2013 -0300

    The context menu is working again in the viewer_slice.py

commit 6c0a5b4c281b1d79d5d0fc21728c08868cc71bb2
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Wed Mar 27 15:08:39 2013 -0300

    OnBrushRelease was not binded to 'LeftButtonReleaseEvent'

commit 7c998231f939f0552a99ff41c98d1ac3605ce57d
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Wed Mar 27 15:00:48 2013 -0300

    Added get_coordinate_cursor to CrossInteractorStyle

commit 9cbf791e35f212fdf2b10ddf976636fb6581c7e9
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Tue Mar 26 16:56:37 2013 -0300

    Created a new interactor style to handle the editor

commit 91ea38bc564f284c3994463530e94847ff2d2bd1
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Tue Mar 26 14:50:16 2013 -0300

    Added a comment to DefaultInteractorStyle

commit b4a359d6ebbd778f9cf4dcb23edeff9f79884344
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Tue Mar 26 14:47:56 2013 -0300

    Using DefaultInteractorStyle to const.STATE_DEFAULT

commit ea58ed7c4ac5d7e5c640a49ccce5368e82dea611
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Tue Mar 26 14:43:20 2013 -0300

    Renamed RightZoomInteractorStyle to DefaultInteractorStyle

commit b7ec9d2e436da10570ecbcf7f25ca32213200872
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Tue Mar 26 14:19:29 2013 -0300

    Added MouseWheelForwardEvent and MouseWheelBackwardEvent to the RightZoomInteractorStyle

commit 13b7b7ff758a45cf9e89b9ddbcdd190b2de8a8b9
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Tue Mar 26 14:07:01 2013 -0300

    Passing the viewer to all interactor styles

commit 89d8c6172efeec81359417a1943175968701204a
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Tue Mar 26 10:25:18 2013 -0300

    Created a new interactor style to change slices with the mouse movement

commit 88fe930f156968916c77b789a5acfded93bd4988
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Tue Mar 26 09:32:37 2013 -0300

    Cleaning unneeded code related to the zoom

commit 58ec7c3a2b56db90ad6ca5fc06da8df731481634
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Tue Mar 26 09:26:31 2013 -0300

    Created a new interactor style to handle the Zoom camera by selecting a region

commit 4df1d0612d7041ac2ecc27173483a79dc32b9bec
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Tue Mar 26 09:12:00 2013 -0300

    Created a new interactor style to handle the Zoom camera

commit 2ae6b47162dc63a104edcbd6bb398702642c6d08
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Mon Mar 25 16:32:13 2013 -0300

    Renamed ZoomInteractorStyle to RighZoomInteractorStyle

commit 96dd7511bbbd28c9161dea9c3e2bc466be2646fe
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Mon Mar 25 16:25:55 2013 -0300

    Created a method to reset camera after a span camera

commit 1a85e2a409c9278c6fabae045fbf33a6bc25900f
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Mon Mar 25 16:01:14 2013 -0300

    Created a new interactor style to handle the Spin camera

commit 354f97e80f0f917cc825554b4cf077bbd410a15b
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Mon Mar 25 14:55:46 2013 -0300

    STYLE: Renamed the class LinearMeasure and AngularMeasure

commit 87eacea8d9d7b2a460a8156b45c372fa8d6a32f4
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Fri Mar 22 16:53:16 2013 -0300

    Created a new interactor style to the pan

commit fd6166669bb91315308844a461bd7b8d579f4e79
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Fri Mar 22 16:42:25 2013 -0300

    Removed code which handle angular measurements from viewer_slice

commit 3eeb17e13d68e4b08a88cbff283a3c6e9995d92b
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Fri Mar 22 16:40:16 2013 -0300

    Fix in a comment

commit 3ecbb5f87d2bdd3e343e3db26cc4298285e258fc
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Fri Mar 22 16:38:50 2013 -0300

    Created a new interactor style to handle angular measurements

commit aefd974a410622be9d300330702a99e5b76a51f4
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Fri Mar 22 14:43:05 2013 -0300

    Created a new interactor style to handle Linear measure

commit 13f819f768cfbf96681f14da0f5f253878c12f16
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Fri Mar 22 10:52:45 2013 -0300

    Created a new interactor style to handle Window level & width

commit f7b5fc4d6a0a17b0359510217568644ca344dc5a
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Thu Mar 21 15:40:43 2013 -0300

    Created a new interactor style to handle the cross tool
    Thiago Franco de Moraes
     

06 Feb, 2013

1 commit

29 Oct, 2009

1 commit

10 Jun, 2009

1 commit