24 Mar, 2017

2 commits

02 Feb, 2017

1 commit

  • bed72ec3   Neuronavigation module update and improvement (#65) ... Browse File » 
    Neuronavigation module updatings and improvements

* Revert "Revert "ENH: Update neuronavigator modules""

This reverts commit 2ecc37998e18c762b82413314fcf75d1491ca1be.

* ENH: Update corregistration comments.

* ENH: Restructuring InVesalius Navigator spatial tracker communication.

* ENH: Restructuring the spatial tracker communication.

* ENH: Updating navigation tools.

* Code refactoring for navigator development

- Delete previous git mistakes while tracking files
- Code fix to run invesalius navigator and start code refactoring

* Update navigator GUI
- Improvement on manipulation of markers creation and edition
- Buttons and panels size adjustment

* Improvement on trackers connection
- MicronTracker supports dynamic reference

* VTK6 adjustments - SetInputData
-Using SetInputData instead SetInput

* Update Create Markers and fix sphere creation

- Improvement on manipulation of markers creation and edition
- Using SetInputConnection(GetOutputPort()) instead SetInputData(GetOutput())

* GUI update and creation of fiducial markers

* Fix Fiducial Markers

* Update - Load Fiducial points using "Load Markers"

* Fix Trackers (PLH) and Navigation

* Update ComboBox and trackers connection

* Full support for Analyze, NIfTI and PAR/REC images
- Support for Analyze, NIfTI, Compressed NIfTI and PAR/REC images
- Support for Analyze limited due to lack of orientation info
- Image orientation standardized to RAS+

* ComboBox Update
- Set "Select tracker" when the tracker is not connected

* Fixed usp-navegador version
- Changed GetValue to GetValue()
- Changed SetInputData to SetInput
- Changed SetInputConnection to SetInputData

* Manually merged rmatsuda master_merge branch to usp-navegador
- Improved navigation GUI
- Improved navigation control of spatial trackers
- Added management of makers creation
- Added dialogs for better neuronavigation control

* Added TMS trigger and enhanced tracker device control
- Serial communication to detect TMS trigger
- Added MicronTracker calibration and marker files
- Enhanced tracker manipulation

* Navigation cleaning and improvements in viewer volume
- Cleaned unecessary navigation functions
- Optimized volume camera and ball reference positions
- Enhanced markers manipulation
- Removed blank lines

* Improved task_navigator GUI
- Better code using GridBagSizer
- Removed useless code

* Improvement in coordinates handling for neuronavigation

* Significant refactor of navigation pipeline
- Improvement in navigation panel controls
- Refactoring of volume and slice updates
- Improvement in communication with tracking devices
- Refactoring of entire navigation pipeline

* Improved colour and size of navigation markers

* Added trigger and volume camera controls
- Reformulated markers creation
- Created control of volume camera
- Control for external trigger marker creation

* Minor code adjustments

* GUI improvements

* Minor code optimization
- Improved load markers
    Victor Hugo Souza
     

21 Sep, 2016

1 commit

11 Aug, 2016

1 commit

  • d4ff9146   Micro ct improvements (#45) ... Browse File » 
    * FIX: Error in bitmap reader in Win32

* FIX: Fixed error in window and level

* FIX: Fixed problem with inverted slices and uint16 images

* FIX: Fixed problem with resample

* ENH: Reader load spacing from txt file info

* ENH: Dialog to show that have images with different size

* ENH; Enhancemets to sort files in folder

* FIX: Changed message when are not bitmap files

* ENH: Added uCT label in menu

* ENH: Enhancements in bitmap panel

* NEW: Delete image in InVesalius import panel

* ENH: Enhancements in delete window

* ENH: Enhancements in import bitmap panel

* ENH: Enhancements to delete bmp in import bitmap panel

* ENH: Added black slice when delete last slice
    Paulo Henrique Junqueira Amorim
     

08 Jul, 2016

1 commit

16 May, 2016

1 commit

  • 68b4d2a5   Image Reorientation (#36) ... Browse File » 
    Image reorientation

* Added the code to reorient image and numpy styles

* Starting to show reoriented image

* Styles

* Showing the cross

* Dragging the center of rotation

* Improvements

* It's already rotating

* Improvements

* Rotating using quaternion

* Updating all orientations only when the user release the mouse button

* Updated the setup.py to compile in mac

* Showing angles in a dialog

* Almost done

* Improvements

* Cythonize in windows

* Avoiding zero division in vector normalize

* Avoiding zero division in vector normalize

* Showing and hidding mask when using reorient image

* Closing reorient image dialog when out of reorient style

* Added __init__
    Thiago Franco de Moraes
     

16 Jun, 2015

1 commit

02 Jun, 2015

1 commit

25 May, 2015

1 commit

20 Apr, 2015

1 commit

  • 6cf4c91a   Adds boolean operation to mask (union, xor, diff, intersection) ... Browse File » 
    Implements boolean operations to masks. The user has a gui to choose the
masks and the operation (union, xor, diff, intersection). Then
InVesalius creates a new mask with the result of the operation.

Doing some boolean operations

Added Intesection and XOR

There was an error in the bool diff operation

Gui improvements

changed "xor" to "exclusive disjuction"

added the icons

Improvements to the boolean operation dialog

Added a menu to mask operations (booleans is there)
    Thiago Franco de Moraes
     

02 Mar, 2015

1 commit

26 Feb, 2015

1 commit

23 Feb, 2015

3 commits

12 Feb, 2015

1 commit

22 Aug, 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
     

07 Apr, 2014

1 commit

17 Dec, 2013

1 commit

07 Aug, 2013

1 commit

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
     

04 Mar, 2013

1 commit

25 Feb, 2013

1 commit

21 Sep, 2012

1 commit

17 Sep, 2012

1 commit

14 Sep, 2012

3 commits

12 Sep, 2012

3 commits

31 Aug, 2012

1 commit

10 Aug, 2012

1 commit

08 Aug, 2012

1 commit

27 Jul, 2012

1 commit

26 Jun, 2012

1 commit

  • 295c16a0   The code fix gantry tilt was rewrite to use the numpy arrays. ... Browse File » 
    The old code to fix gantry tilt was not working with the memmapped
numpy array. That was rewrite so to work with memmapped numpy array
using scipy.ndimage.shift. In
the new code I'm not recalculating the new z-spacing anymore.

Squashed commit of the following:

commit 574b9b042bc6a8585efcdb4fd12a65c4b43e0840
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Tue Jun 26 15:19:08 2012 -0300

    Removed the code to calculate a new spacing, it's not necessary

commit 4f91d993995130618275c7aeede4f6502ae66e0c
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Tue Jun 26 14:44:22 2012 -0300

    Not rounding spacing values to 2 decimal houses anymore

commit 3313175cdc2a2c22c04bf2d8545c50ede86ced66
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Mon Jun 25 16:50:56 2012 -0300

    Testing not applying the translate_coef

commit 363c1ce0bcb2860c4a764201ea5525c865d439dc
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Mon Jun 25 13:22:08 2012 -0300

    Changing spacing values when fixing gantry tilt

commit 30785e8ebb945250e45a8b8768253b196112a801
Author: Thiago Franco de Moraes <totonixsame@gmail.com>
Date:   Tue Jun 12 15:32:50 2012 -0300

    Using scipy.ndimage.shift to gantry tilt correction
    tfmoraes
     

27 Mar, 2012

1 commit

23 Mar, 2012

1 commit