Changelog

2.2.2

2016-11-29¹

Major Changes:

added pytest and unittest tests
added z height bead extraction "layer option" to context menu
implemented layer load buttons
per layer brightness/contrast adjustment selectable over radiobuttons
show/hide layers
coloring of rgb images
option for custom rgb color alongside standard red, green and blue
option to save the blended images (under options)
interface changes: custom rotation center was moved to options tab and layer settings are in the control tab
added single slice view for volumes

Minor Changes:

mac path drag and drop update
added anaconda environment.yml files for linux, mac and windows
performance improvement for scrolling through stack with coloring enabled
correlation overlay is now a separate layer
fine tuned brightness/contrast settings to be consistent when loading different slices and/or saving correlated images with the correct brightness/contrast

Bugfixes:

bugfix causing an error in writing the report when the 2D image is missing pixel size information (the function messing it up here will be deprecated soon, so this is just a temporary bugfix)
bugfix for loading new 3D stacks which were not updating anymore (brightness, contrast, slice...)
bugfix for leading slash in path in mac os x. Introduced during a Python packages update. Formerly only a problem on linux
bugfix sorting issue of os.listdir was stacking images incorrectly and showing unsorted file lists
bugfix linux (kde): filedialog side selection issue in import and export of coordinate files
bugfix in GUI
bugfix correct loading of new images (deleting previous "adjusted images")
bugfix blending handling of none colored images with RGB overlay after correlation
bugfix in normalizing tool
bugfix for loading layer (check for same image size/type)
bugfix for correct coloring on correlated image, both for displaying and saving
bugfix marker in some situations was stacked behind the image
bugfix contextmenus deactivated for spinboxes, since that caused problems with control guiding (enable/disable of control elements for better user experience)
bugfix zero based bug fix for z height
bugfix for ui element focus when switching back to MIP view while having focus on the slice selector spinbox
bugfix where checkbox selection broke the MIP<->slice view on windows and linux
bugfix for some control enable/disable elements when switching between widgets
fixed some hick-ups with correct brightness/contrast application
bugfix brightness contrast is applied to every slice that is viewed (was resetting all the time)

2.1.0

2016-06-30¹

Major Changes:

added slice from stack view. Instead of a maximum intensity projection, single slices of 3D image stack volumes can be displayed

Minor Changes:

fine tuned brightness/contrast settings to be consistent when loading different slices and/or saving correlated images with the correct brightness/contrast
the adjusted brightness/contrast is applied to the correlated image which is also displayed in the application. Any further brightness/contrasts adjustments are based on the new image. Hit the “reset image button” if you want to load the original image again.

Bugfixes:

fixed some control enable/disable bugs when switching between widgets
fixed some hick-ups with correct brightness/contrast application

Known bugs:

file list order from working directory in 3DCT main window not sorted correctly under Linux (tested under Ubuntu 15.04)
when changing contrast/brightness and the focus is switched quickly during the process (like clicking on the other image) the order of added markers is not correct anymore. A workaround is to click on the affected image and change the contrast/brightness again, or reset it.

2.0.3

2016-06-09¹

Minor Changes:

added some in-code documentation
added missing matlab function in matlab roatation script generator
stack processing of CorrSight sequences now include tiles. They are added in sequence, i.e. stack after stack in one file

Bugfixes:

fixed loading of RGB images. Some were imported incorrectly and showed tiling
coordinate offset calculation for rotation center other than 0,0,0
matlab roatation script generator variable typo fixed

Known bugs:

file list order from working directory in 3DCT main window not sorted correctly under Linux (tested under Ubuntu 15.04)
when changing contrast/brightness and the focus is switched quickly during the process (like clicking on the other image) the order of added markers is not correct anymore. A workaround is to click on the affected image and change the contrast/brightness again, or reset it.

2.0.2

2016-04-27¹

Minor Changes:

removed broken deprecated poly spline method for extracting z coordinates from beads
quick help documentation update
added menu help link to online user’s guide

Bugfixes:

not disappearing arrows from the residual indication are now removed when resetting the image (correlation module)

Known bugs:

file list order from working directory in 3DCT main window not sorted correctly under Linux (tested under Ubuntu 15.04)
when changing contrast/brightness and the focus is switched quickly during the process (like clicking on the other image) the order of added markers is not correct anymore. A workaround is to click on the affected image and change the contrast/brightness again, or reset it.

2.0.1

2016-04-20¹

Major Changes:

added 2D to 2D and 3D to 3D correlation capabilities. The written report is still tailored towards 2D to 3D correlation though

Minor Changes:

small code cosmetics
errors from correlation were only raised (visible in debug mode in the console). Added message box dialogs for gui non-console mode
added reset buttons for image display, i.e. if a correlation was done the reset will clean up the painted correlated marker

Bugfixes:

fixed opacity bug in correlation result image

2.0.0

2016-04-19¹

Minor Changes:

added distances of POIs in FIB image from its center (in px and um) for setting the POIs on the SEM/FIB microscope

2.0.0 rc1

2016-04-18¹

Minor Changes:

added marker size and alpha adjustment in correlation module
global debug switch in tdct/TDCT_debug.py

2.0.0 beta 5

2016-04-15¹

Minor Changes:

focus step size extraction from exif data

2.0.0 beta 4

2016-04-07¹

Bugfixes:

fixed double close() call of correlation widget in case of external call
fixed RGB tiff imread

2.0.0 beta 3

2016-04-05¹

Major Changes:

function integration complete (finished “normalize” and “Maximum Intensity Projection”)

Minor Changes:

more precise dialog descriptions
minor code changes in stack processing (debug handling and process bar)

2.0.0 beta 2

2016-03-29¹

Major Changes:

path handling and validity check for all path selections done

Minor Changes:

added quick help buttons

Bugfixes:

drop file/dir path on QLineEdit mac bug fixed (http://stackoverflow.com/questions/34689562/pyqt-mimedata-filename)

2.0.0 beta 1

2016-03-23¹

Major Changes:

correlation module now correctly included in main toolbox app (test for valid files and working dir as well as passing working dir to correlation module)
first big file structure cleanup and gui change from QWidget to QMainWindow for correlation module standalone mode

Minor Changes:

fixed folder spelling (“tdtc” to “tdct”)
app icon change

Bugfixes:

making the correlation module easily integrable into other qt apps. Therefore a few structural changes were introduced to the correlation module code

Jan Arnold - ↩

User's Guide

Tutorial

Citable

3D Correlation Toolbox

pyto

Changelog

2.2.2

Major Changes:

Minor Changes:

Bugfixes:

2.1.0

Major Changes:

Minor Changes:

Bugfixes:

Known bugs:

2.0.3

Minor Changes:

Bugfixes:

Known bugs:

2.0.2

Minor Changes:

Bugfixes:

Known bugs:

2.0.1

Major Changes:

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2.0.0

Minor Changes:

2.0.0 rc1

Minor Changes:

2.0.0 beta 5

Minor Changes:

2.0.0 beta 4

Bugfixes:

2.0.0 beta 3

Major Changes:

Minor Changes:

2.0.0 beta 2

Major Changes:

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2.0.0 beta 1

Major Changes:

Minor Changes:

Bugfixes: