Diffusion BIOP Run Macro (master) History

History
mastercd8abf46137d447583b8dcf…

Jun 20 2012

Coloc 2: fix Spearman T statistics test case
cd8abf46137d
·Tom Kazimiers on Jun 20 2012, 12:47.
Coloc 2: fix Spearman T statistics calculation
5e3a7c9d04af
·Tom Kazimiers on Jun 20 2012, 12:47.
Coloc 2: fix Spearman Rank unit test
957a501392e7
·Leonardo Guizzetti / Tom Kazimiers on Jun 20 2012, 12:47.
Coloc 2: add alternative Spearman Rank call
8cc14ced4cc7
·Tom Kazimiers on Jun 20 2012, 12:47.
Coloc 2: add override annotation and small style change
4f3cb825fe18
·Leonardo Guizzetti / Tom Kazimiers on Jun 20 2012, 12:47.
Coloc 2: use RandomAccessibleInterval instead of Img
8878ad5cec85
·Tom Kazimiers on Jun 20 2012, 12:47.
Coloc 2: migrate to Imglib2
bb87f31f40b3
·Tom Kazimiers on Jun 20 2012, 12:47.
Coloc 2: Added Spearman Rank Correlation.
747cf201317e
·Leonardo Guizzetti / Tom Kazimiers on Jun 20 2012, 12:47.
Coloc 2: fix typo
2952b8238117
·Tom Kazimiers on Jun 20 2012, 12:47.
Coloc 2: handle unavailable RoiManager gracefully
d715c943ec4c
·Tom Kazimiers on Jun 20 2012, 12:47.
Coloc 2: fix small array index bug
59522da063bd
·Tom Kazimiers on Jun 20 2012, 12:47.

Nov 4 2011

Coloc 2: make the threshold regression use a better bisection method
d8e5cb48953a
·Tom Kazimiers on Nov 4 2011, 17:09.
Coloc 2: fix problem with masks having a z-offset that crashed Costes
0bdc57a3b16b
·Tom Kazimiers on Nov 4 2011, 16:04.
Coloc 2: calculate image statistics with respect to the mask
e9ddbbdc22ed
·Tom Kazimiers on Nov 4 2011, 16:04.
Coloc 2: add background subtraction suggestion to warning in auto-threshold
e6cd516c459c
·Tom Kazimiers on Nov 4 2011, 09:42.
Coloc 2: add warnings for auto-threshold if new thr. is above image mean
e402fb9627f9
·Tom Kazimiers on Nov 4 2011, 09:39.
Coloc 2: register result window with IJ window manager
768a9eed1f1c
·Tom Kazimiers on Nov 4 2011, 09:34.
Coloc 2: style change
60fc9232dc9e
·Tom Kazimiers on Nov 4 2011, 09:34.
Coloc 2: better naming of the current result window
e341071fa67a
·Tom Kazimiers on Nov 4 2011, 09:33.
Coloc_2: Always tell that we need two open images
89f876318145
·eglinger / Tom Kazimiers on Nov 4 2011, 09:00.

Oct 21 2011

Coloc 2: style change
4fdb7473417b
·Tom Kazimiers on Oct 21 2011, 16:04.
Coloc 2: get rid of not needed bounding box mask image
d658b78e2b96
·Tom Kazimiers on Oct 21 2011, 16:04.
Coloc 2: add forgotten close() calls on cursors in mask factory
671c86e76fac
·Tom Kazimiers on Oct 21 2011, 14:02.
Coloc 2: add test case for creation of mask based on lower-dim image
995a3ad00097
·Tom Kazimiers on Oct 21 2011, 14:01.

Oct 18 2011

Coloc 2: add support for the ROI manager
2908ab9cbd2a
·Tom Kazimiers on Oct 18 2011, 17:39.

Oct 17 2011

Coloc 2: use better assertion statements in Pearson tests
3e95cdfb384b
·Tom Kazimiers on Oct 17 2011, 11:30.
Coloc 2: add test case for unthresholded Pearson's colocalization
4d1310359e84
·Tom Kazimiers on Oct 17 2011, 11:19.
Coloc 2: correctly close the cursor after usage
0a54ae6a95f0
·Tom Kazimiers on Oct 17 2011, 11:12.
Coloc 2: use newly made test images comparable to the Manders paper ones
193f2c0ec151
·Tom Kazimiers on Oct 17 2011, 11:09.

Oct 14 2011

Coloc 2: recreate tests that are given in the Manders paper
5945143d8f59
·Tom Kazimiers on Oct 14 2011, 15:18.
Coloc 2: rename ManderCorrelation to MandersColocaization
ea1001d3d856
·Tom Kazimiers on Oct 14 2011, 15:15.

Oct 10 2011

Coloc 2: add another unit test for testing a basic mask creation method
b1ba861f1836
·Tom Kazimiers on Oct 10 2011, 17:11.
Coloc 2: factor out actual Manders calculation into separate class
5de35927c443
·Tom Kazimiers on Oct 10 2011, 16:06.
Coloc 2: style change in test case for Li's ICQ values
7245282e9c63
·Tom Kazimiers on Oct 10 2011, 15:10.
Coloc 2: fix bug in Li's ICQ calculation
61d164223efb
·Tom Kazimiers on Oct 10 2011, 15:09.
Coloc 2: style changes
d106d9dcbe3e
·Tom Kazimiers on Oct 10 2011, 14:51.
Coloc 2: add a test that checks for the correctness of a masks content
59096342af66
·Tom Kazimiers on Oct 10 2011, 14:51.
Coloc 2: add another test case for testing the creation of regular masks
82cfb9724abe
·Tom Kazimiers on Oct 10 2011, 14:51.
Coloc 2: use the correct data access methods of TwinCursor in mask tests
61ff960adef1
·Tom Kazimiers on Oct 10 2011, 14:51.
Coloc 2: rename a mask test case to refer to the right type of masks
b9c9a8b71bf6
·Tom Kazimiers on Oct 10 2011, 14:51.
Coloc 2: fix test for creation of regular masks and make it simpler
f83a2adc153b
·Tom Kazimiers on Oct 10 2011, 14:51.
Coloc 2: add two mask creation helper methods to test cases
238807e72ab7
·Tom Kazimiers on Oct 10 2011, 14:51.
Coloc 2: fix bug that caused created regular masks to be too small
08873e835521
·Tom Kazimiers on Oct 10 2011, 14:51.

Oct 8 2011

Coloc 2: fix bug in Costes algorithm that ignored the mask offset
d899ff44b1fe
·Tom Kazimiers on Oct 8 2011, 01:19.
Coloc 2: give out mask offset and size only as cloned arrays
56b1a53f8842
·Tom Kazimiers on Oct 8 2011, 00:52.
Coloc 2: reword an error message
0e03b8c5e9a3
·Tom Kazimiers on Oct 8 2011, 00:50.
Coloc 2: Don't show ImugeJ exception dialog on missing pre conditions
8d655d1b9d2f
·Tom Kazimiers on Oct 8 2011, 00:49.

Oct 7 2011

Coloc 2: Reduce dependence between two channels in thresholded Manders
b94896015df0
·Tom Kazimiers on Oct 7 2011, 23:09.
Coloc 2: ensure valid layout after changing components in SingleWindowDisplay
6d47477d6f4d
·Tom Kazimiers on Oct 7 2011, 22:39.
Coloc 2: Fix bug that prevented auto log display in SingleWindowDisplay
d3dc22910736
·Tom Kazimiers on Oct 7 2011, 22:05.
Coloc 2: Add status information to ImageJ GUI
7f4665db2eda
·Tom Kazimiers on Oct 7 2011, 18:15.
Coloc 2: Enable "Show shuffled" checkbox only if Costes is selected
2e60c6d20c97
·Tom Kazimiers on Oct 7 2011, 16:31.
Coloc 2: remove all remains of the old architecture
da6e49ee3d4b
·Tom Kazimiers on Oct 7 2011, 15:58.
Coloc 2: adjust irregular mask test cases
b8c7aae7db57
·Tom Kazimiers on Oct 7 2011, 15:58.
Coloc 2: make Costes calculations fit into new architecture
5e085aa58c11
·Tom Kazimiers on Oct 7 2011, 15:19.
Coloc 2: add option to GUI to show shuffled image from Costes calculations
f2ef0b85f9c4
·Tom Kazimiers on Oct 7 2011, 15:15.
Coloc 2: Allow external invocation of Persons calculation with a mask
b9ab8436f5d2
·Tom Kazimiers on Oct 7 2011, 14:54.
Coloc 2: Indicate what kind of mask is used in a cleaner way
8ff136663665
·Tom Kazimiers on Oct 7 2011, 14:44.
Coloc 2: Style fixes and a member name change for readability
15bcc7fd03cd
·Tom Kazimiers on Oct 7 2011, 13:50.
Coloc 2: let input check algorithm use twin curor and mask
1322f8d9eb4b
·Tom Kazimiers on Oct 7 2011, 13:19.
Coloc 2: Use TwinCursor in 2D histogram (scatter plot) and Lis histograms
fda14d986b67
·Tom Kazimiers on Oct 7 2011, 12:01.
Coloc 2: style and spelling fixes
bc47cac09e7a
·Tom Kazimiers on Oct 7 2011, 12:01.
Coloc 2: Fix a not-yet-ported part of auto threshold regression
dfd2db0116b8
·Tom Kazimiers on Oct 7 2011, 12:01.
Coloc 2: Allow masks with lower dimensionality and in there same extent
11e85bfb384b
·Tom Kazimiers on Oct 7 2011, 10:56.
Coloc 2: Handle mask offset and size expansion in separate methods
2965d8b55caf
·Tom Kazimiers on Oct 7 2011, 10:41.
Coloc 2: Allow creation of equal dimensional masks
23fcef2f841c
·Tom Kazimiers on Oct 7 2011, 09:31.
Coloc 2: style and commit changes
34694e758ea7
·Tom Kazimiers on Oct 7 2011, 09:31.
Coloc 2: remove TwinValueRangeCursor
b2722a7c6e83
·Tom Kazimiers on Oct 7 2011, 09:31.

Oct 6 2011

Coloc 2: Eliminate last use of TwinValueRangeCursor in testing helper
d97ba394f3e6
·Tom Kazimiers on Oct 6 2011, 16:46.
Coloc 2: Make display of masked images in result work with TwinCursor
16b361c847f7
·Tom Kazimiers on Oct 6 2011, 16:33.
Coloc 2: Make TwinCursor a LocalizableCursor
b9f88e6ae5b9
·Tom Kazimiers on Oct 6 2011, 16:31.
Coloc 2: Add option to display both channels images in result
3c3282af35ff
·Tom Kazimiers on Oct 6 2011, 15:44.
Coloc 2: Put accumulation of values from TwinCursor in separate class
7281f028883c
·Tom Kazimiers on Oct 6 2011, 11:40.
Coloc 2: use new masking for regular ROIs
44e1efea528c
·Tom Kazimiers on Oct 6 2011, 09:45.
Coloc 2: Modify regular ROI test cases to fit new bit-mask implementation
701b613201fa
·Tom Kazimiers on Oct 6 2011, 09:45.
Coloc 2: Add argument check for ROI mask creation
6c04c92b7bfd
·Tom Kazimiers on Oct 6 2011, 09:45.
Coloc 2: Add factory method for creating a bit mask from a ROI
d0c5de3d487d
·Tom Kazimiers on Oct 6 2011, 09:39.
Coloc 2: Use TwinCursor in Manders algorithm
53ac5ec16640
·Tom Kazimiers on Oct 6 2011, 09:39.
Coloc 2: Use TwinCursor in Li's ICQ calculation
0bb6ccc39636
·Tom Kazimiers on Oct 6 2011, 09:39.
Coloc 2: Add alternative TwinCuror implementation to simplify plugin
5e2874e9b67a
·Tom Kazimiers on Oct 6 2011, 09:39.
Coloc 2: Be more precise on complaints about y-intercept
57df00845094
·Tom Kazimiers on Oct 6 2011, 09:39.
Coloc 2: replace spaces in dialog items with underscores
c643f84e8ba5
·Tom Kazimiers on Oct 6 2011, 09:38.

Oct 4 2011

Coloc 2: style fix for correct spelling and comments
509cf02aa2ea
·Tom Kazimiers on Oct 4 2011, 09:50.

Sep 24 2011

Coloc 2: style fixes for use of an enum
c29bb2456bc3
·Johannes Schindelin on Sep 24 2011, 09:14.
Coloc 2: provide the MaskedImage with a LocalizableByDimCursor
b08d4e1b3c4a
·Johannes Schindelin on Sep 24 2011, 09:14.
Coloc 2: thresholded Manders really should use the threshold
9f00a97de25a
·Johannes Schindelin on Sep 24 2011, 09:14.
Coloc 2: let the ConstraintCursor tell the caller which predicates succeeded
05ca8f6539c9
·Johannes Schindelin on Sep 24 2011, 09:14.
Coloc 2: make default size of the window bigger
1749d88fb096
·Johannes Schindelin on Sep 24 2011, 09:14.
Coloc 2: fix Log toggle
732a07e889ea
·Johannes Schindelin on Sep 24 2011, 08:09.
Coloc 2: fix reliance on IJ1 side effect
ecf6ee142cea
·Johannes Schindelin on Sep 24 2011, 07:55.
Use the JImagePanel in Coloc 2
2fdedc5b56db
·Johannes Schindelin on Sep 24 2011, 07:55.
Simplify code in Coloc 2
b3d5466d11fa
·Johannes Schindelin on Sep 24 2011, 07:55.
Coloc 2: some cosmetic style fixes
e1179a2f70da
·Johannes Schindelin on Sep 24 2011, 07:55.
Coloc 2: order some imports
a11cb495356d
·Johannes Schindelin on Sep 24 2011, 07:55.
Coloc 2: fix access permissions and white-space
4c999c5694bb
·Johannes Schindelin on Sep 24 2011, 07:55.

Aug 9 2011

Updated from iText-1.3 to iText-5.5.1
3b5853c8fea0
·Jean-Yves Tinevez on Aug 9 2011, 14:50.

Mar 28 2011

Coloc_2 fix compilation with Fiji build system.
2e2bffc50f54
·Daniel James White on Mar 28 2011, 14:33.

Feb 22 2011

Coloc 2: Make all GUI settings except channels and ROIs persistent
96c0b3a1dcda
·Tom Kazimiers on Feb 22 2011, 12:06.
Coloc 2: Add GUI option to disable pop-up of save-PDF-dialog
2c712022c2af
·Tom Kazimiers on Feb 22 2011, 12:06.
Coloc 2: Style changes
614d610dfed9
·Tom Kazimiers on Feb 22 2011, 12:06.

Historymastercd8abf46137d447583b8dcf…

Jun 20 2012

Nov 4 2011

Oct 21 2011

Oct 18 2011

Oct 17 2011

Oct 14 2011

Oct 10 2011

Oct 8 2011

Oct 7 2011

Oct 6 2011

Oct 4 2011

Sep 24 2011

Aug 9 2011

Mar 28 2011

Feb 22 2011

History
mastercd8abf46137d447583b8dcf…