-> gtgen-ng was renamed to mitopacq (spelled as MitoPacq in official documents)
-> tools renamed to scripts, src/tools introduced
-> many tools from the CBIA Optical flow collection of tools was
	adopted in this archive, you'll find them in src/tools as well as
	former src/toolbox/motion etc.

M    Doxyfile					- changed gtgen-ng to mitopacq
M    CMakeLists.txt			- adds the new tools
									- the binary gtgen-ng renamed to mitopacq

M    scripts/finalize.sh	- changed the name of the binary: gtgen-ng -> mitopacq
M    scripts/visualize_scheduling/prepareSchedulingPlot.sh  - ranamed gtgen-ng to mitopacq

M    src/main.cpp				- changed advice at the end: gtgen-ng -> mitopacq
M    src/scheduler.cpp		- changed the name of the lock file: gtgen-ng -> mitopacq

D    tools
D    src/toolbox/tracks
D    src/toolbox/motion
A    src/tools
A    src/tools/imagetognuplot.cpp
A    src/tools/imageinfo.cpp
A    src/tools/getslice.cpp
A    src/tools/floattogray16.cpp
A    src/tools/dt.cpp
A    src/tools/rotate90.cpp
A  + src/tools/correct_tracks.cpp
A    src/tools/resample.cpp
A    src/tools/readFFvector.cpp
A    src/tools/equalize.cpp
A    src/tools/log.cpp
A    src/tools/gauss.cpp
D    scripts/getMax.cpp
A  + src/tools/getMax.cpp
A    src/tools/pointstovtklegacy.cpp
A    src/tools/getrange.cpp
A  + src/tools/remove_label.cpp
A    src/tools/threshold.cpp
A    src/tools/median.cpp
A    src/tools/histogram.cpp
A    src/tools/changeformat.cpp
A    src/tools/imagetovtklegacy.cpp
A  + src/tools/apply_mask.cpp
A  + src/tools/extract_flow.cpp
A    src/tools/setoffset.cpp
A    src/tools/crop.cpp
A    src/tools/historyimage.cpp
A    src/tools/divide.cpp
A    src/tools/compose.cpp
A    src/tools/substract.cpp
A    src/tools/transpose.cpp
A    src/tools/multiply.cpp
A    src/tools/convolution.cpp
A    src/tools/setresolution.cpp
A    src/tools/floattogray8.cpp
A    src/tools/makeaf.cpp
A  + src/tools/merge_images.cpp
A    src/tools/build3D.cpp
A    src/tools/graytogray.cpp
A    src/tools/flip.cpp
A    src/tools/graytofloat.cpp
A  + scripts
D    scripts/batch_cmd.sh

SVN archive svn://sarapis:2201/of/tags/ISBI2013.

Here, one should find the version that's been used
for generating of the official training data for
the Cell tracking challenge at ISBI2014.

A    tools
A    tools/visualize_scheduling
A    tools/visualize_scheduling/reformatSchedulingPlot.cpp
AM   tools/visualize_scheduling/prepareSchedulingPlot.sh
A    tools/visualize_cell_volumes
A    tools/visualize_cell_volumes/volume.gp
A    tools/3D_to_2D.sh
A    tools/getMax.cpp
A    tools/aura.fi.muni.cz
AM   tools/finalize.sh
AM   tools/serialCrop.sh
A    tools/batch_cmd.sh
AM   tools/serialCompose.sh
A    Doxyfile
A    config
A    config/config-middleVOI-lowSNR.ini
A    config/config-smallVOI-highSNR-correctSize.ini
A    config/config-singleCell.ini
A    config/config-smallVOI-highSNR.ini
A    config/config-smallVOI-lowSNR.ini
A    config/config-middleVOI-highSNR.ini
A    doc
AM   doc/ukoly_ISBI2014.jpg
AM   doc/ISBI2013_ChallegeDatasets_configuration.jpg
AM   doc/cbia_logo.png
A    doc/paralel_execution.txt
AM   doc/ISBI2013_TrainingDatasets_configuration.jpg
AM   doc/ISBI2014_New_Train_and_ChallDatasets_configuration.jpg
AM   doc/internals-scheme.pdf
AM   doc/casovani_bunky.jpg
AM   doc/ISBI2014_Old_Train_and_ChallDatasets_configuration.jpg
A    images
AM   images/initial_mask_after_005.ics
AM   images/initial_single_cell.ics
A    images/initial
AM   images/initial/ID6_C10_SceneSizeB_ready.ics
AM   images/initial/ID1_C15_SceneSizeS_ready.ics
AM   images/initial/ID5_C4_SceneSizeS_ready.ics
AM   images/initial/ID4_C33_SceneSizeB_ready.ics
AM   images/initial/ID5_C5_SceneSizeS_ready.ics
AM   images/initial/ID2_C8_SceneSizeS_ready.ics
AM   images/initial/initial_mask_after_005_extended.ics
AM   images/initial/initial_mask_after_015_extended.ics
AM   images/initial/ID6_C9_SceneSizeB_ready.ics
AM   images/initial/ID3_C10_SceneSizeS_ready.ics
A    TODO
A    src
A    src/cell_08_G2Phase.cpp
A    src/cell_00_Samplephase.cpp
A    src/molecule.cpp
A    src/settings.h
A    src/toolbox
A    src/toolbox/flowfields.cpp
A    src/toolbox/perlin.h
A    src/toolbox/cell_movement.h
A    src/toolbox/deformations.h
A    src/toolbox/finalpreview.h
A    src/toolbox/shape_rendering.h
A    src/toolbox/flowfields.h
A    src/toolbox/user_abort.cpp
A    src/toolbox/tracks
A    src/toolbox/tracks/apply_mask.cpp
A    src/toolbox/tracks/merge_images.cpp
A    src/toolbox/tracks/correct_tracks.cpp
A    src/toolbox/tracks/remove_label.cpp
A    src/toolbox/user_abort.h
A    src/toolbox/rnd_generators.cpp
A    src/toolbox/collisions.cpp
A    src/toolbox/bp_lists.cpp
A    src/toolbox/rnd_generators.h
A    src/toolbox/collisions.h
A    src/toolbox/bp_lists.h
A    src/toolbox/motion
A    src/toolbox/motion/extract_flow.cpp
A    src/toolbox/cell_movement.cpp
A    src/toolbox/perlin.cpp
A    src/toolbox/deformations.cpp
A    src/toolbox/hungarian
A    src/toolbox/hungarian/Hungarian.h
A    src/toolbox/hungarian/BipartiteGraph.cpp
A    src/toolbox/hungarian/Assignment.cpp
A    src/toolbox/hungarian/Matrix.h
A    src/toolbox/hungarian/BipartiteGraph.h
A    src/toolbox/hungarian/Hungarian.cpp
A    src/toolbox/hungarian/Assignment.h
A    src/toolbox/finalpreview.cpp
A    src/toolbox/shape_rendering.cpp
A    src/cell_05_Cytokinesis.cpp
A    src/cell_02_Metaphase.cpp
A    src/types.h
A    src/dots.cpp
A    src/molecule.h
A    src/cellChr.cpp
A    src/scheduler.cpp
A    src/dots.h
A    src/cell.cpp
A    src/cell_01_Prophase.cpp
A    src/cell_03_Anaphase.cpp
A    src/cellScm.cpp
A    src/scheduler.h
A    src/cell.h
A    src/main.cpp
A    src/cell_04_Telophase.cpp
A    src/cell_07_SPhase.cpp
A    src/macros.h
A    src/cell_06_G1Phase.cpp
A    readme.txt
A    CMakeLists.txt