Diffusion BIOP Run Macro (master) History

main
masterd9f3613f194e13b010c19b1…

May 3 2017

Use sc.fiji.coloc as package prefix
db38c26db03a
·Curtis Rueden on May 3 2017, 20:21.
Organize imports
7479ef73dd90
·Curtis Rueden on May 3 2017, 20:21.
Fix a memory leak
b7f84a775050
·Curtis Rueden on May 3 2017, 20:21.
Coloc_2: remove old main method
acfe92317c3a
·Curtis Rueden on May 3 2017, 20:21.
Make SpearmanRankCorrelation not static
5230beb0482f
·Curtis Rueden on May 3 2017, 20:21.
Dispose the SingleWindowDisplay window on close
125146324f1a
·Curtis Rueden on May 3 2017, 20:21.
SingleWindowDisplay: do not keep list of displays
ad56fd31ad91
·Curtis Rueden on May 3 2017, 20:21.
Add a Groovy script to test programmatic execution
d9e552927c2f
·Curtis Rueden on May 3 2017, 20:21.
Coloc_2: split settings logic out of showDialog
ca1c74598c2a
·Ellen T Arena / Curtis Rueden on May 3 2017, 20:21.
Coloc_2: fix Eclipse warnings
9b46bccd3a2c
·Curtis Rueden on May 3 2017, 20:21.
Coloc_2: add support for headless operation
9962b762390a
·Curtis Rueden on May 3 2017, 20:21.
Coloc_2: return analysis results data structure
2db10aeef83a
·Curtis Rueden on May 3 2017, 18:16.
Coloc_2: add support for passing additional handlers
312b100b876a
·Curtis Rueden on May 3 2017, 18:16.
Coloc_2: clean up style
8a9515166dbb
·Curtis Rueden on May 3 2017, 18:16.

May 1 2017

Fix javadoc errors
b50b4e19fe21
·Curtis Rueden on May 1 2017, 19:39.

Feb 23 2017

Add license blurbs and project license
2624bc49f8f0
·Curtis Rueden on Feb 23 2017, 17:43.

Feb 2 2017

SingleWindowDisplay: hard code nice size
0109af85818a
·Ellen T Arena on Feb 2 2017, 22:44.
SingleWindowDisplay: split monster words
ce780990250b
·Ellen T Arena on Feb 2 2017, 22:15.
SingleWindowDisplay: be DRY with helper methods
93d940a50820
·Ellen T Arena on Feb 2 2017, 22:08.

Feb 1 2017

SingleWindowDisplay: rewrite one printTableRow method
3a3cdf765a8b
·Ellen T Arena on Feb 1 2017, 22:08.

Jan 30 2017

SingleWindowDisplay: wip
b3202d1f0cb8
·Ellen T Arena on Jan 30 2017, 23:23.

Jan 25 2017

SingleWindowDisplay: wip & remove unused printTableRow method
489548d3d135
·Ellen T Arena on Jan 25 2017, 21:41.

Jan 24 2017

SingleWindowDisplay: wip for wrapping text
66ce429808ac
·Ellen T Arena on Jan 24 2017, 22:21.
SingleWindowDisplay: move code for log warnings
036d1baaa4f2
·Ellen T Arena on Jan 24 2017, 22:11.
SingleWindowDisplay: Minor text edits
971f134cd4e2
·Ellen T Arena on Jan 24 2017, 20:58.

Jan 20 2017

SingleWindowDisplay: clean up formatting
12dd811ec239
·Ellen T Arena on Jan 20 2017, 21:24.
SingleWindowDisplay: add warnings to log window
95dbe40117dd
·Ellen T Arena on Jan 20 2017, 21:05.

Jan 19 2017

PDFWriter: create separate list for warnings
6da058542bb8
·Ellen T Arena on Jan 19 2017, 23:14.

Jan 18 2017

PDFWriter: delete code for IJ.log call
fd8153e521a4
·Ellen T Arena on Jan 18 2017, 21:21.

Jan 10 2017

DataContainer: Remove unnecessary comments.
e53a417dc41c
·Ellen T Arena on Jan 10 2017, 21:23.

Jan 9 2017

MandersColocalization: Add new labels
6926bce5c3f8
·Ellen T Arena on Jan 9 2017, 17:56.

Jan 5 2017

INputCheck: retrieve MaskType labels for results
7fc6b27c462f
·Ellen T Arena on Jan 5 2017, 21:20.
DataContainer: Add String labels for MaskType
f63cf8a2752b
·Ellen T Arena on Jan 5 2017, 21:16.

Jan 4 2017

DataContainer: Add String field for mask name
b8ba2a7c5a1c
·Ellen T Arena on Jan 4 2017, 21:27.

Dec 29 2016

Coloc_2: Maximum projection displayed
995481554f28
·Ellen T Arena on Dec 29 2016, 18:42.

Dec 27 2016

SingleWindowDisplay: Improve label display
79bad29c15c6
·Ellen T Arena on Dec 27 2016, 21:23.
SingleWindowDisplay: Put channel names in ()
4bf7e4ba2fcf
·Ellen T Arena on Dec 27 2016, 20:55.
DataContainer: Add getters for original names
fe79246e2fd2
·Ellen T Arena on Dec 27 2016, 20:55.
DataContainer: Refactor source image names
8e837921b561
·Ellen T Arena on Dec 27 2016, 20:55.
DataContainer: make fields private
17c03c3a5290
·Ellen T Arena on Dec 27 2016, 20:55.
SingleWindowDisplay: Add axis labels
d6f1c1def26e
·Ellen T Arena on Dec 27 2016, 20:55.
SingleWindowDisplay: Organize imports
beea532daf67
·Ellen T Arena on Dec 27 2016, 20:53.

Dec 1 2016

Fix typos for parameters in method headers
fdc9fc2cec25
·Ellen T Arena on Dec 1 2016, 20:54.
Fix typos
f8ceb6b25336
·Ellen T Arena on Dec 1 2016, 15:32.

Nov 20 2016

tidy and clarify input check warnings
27fb4200b19c
·dan white / GitHub on Nov 20 2016, 19:58.
Clarify input data warning messages
80d4c6ca1d7c
·dan white / GitHub on Nov 20 2016, 19:52.

Nov 15 2016

prevented accessing the 2D histogram out of range. The number of these access…
22ae47d7a5d7
·haesleinhuepf on Nov 15 2016, 11:43.
Added an input check looking for negative minimum grey values
22c1bfb28f86
·haesleinhuepf on Nov 15 2016, 11:42.

Jun 16 2016

Fix dialog parameters to avoid duplicate keywords
eeeac032f95a
·eglinger / GitHub on Jun 16 2016, 17:00.

Sep 19 2015

Make Coloc_Job_Name value result
ca6cb3e65fa9
·daniel j. white on Sep 19 2015, 12:36.

Sep 2 2015

Results: Set jobName result value to Done instead of -1
2094186244da
·daniel j. white on Sep 2 2015, 15:31.
Results: Allow ResultsHandlers to get mask type and ID
0d148e5e355e
·daniel j. white on Sep 2 2015, 15:31.
Results: Fix typo in DataContainer
779cb1c69fa7
·daniel j. white on Sep 2 2015, 15:24.
Results: issue #33, channel name in image name for results.
897fd4b354f2
·daniel j. white on Sep 2 2015, 15:21.

Aug 30 2015

Use Eclipse to find and add missing @Override annotations
a06fdea26f35
·daniel j. white on Aug 30 2015, 16:05.
change IJ.write to IJ.log
7f32ca9bdf50
·daniel j. white on Aug 30 2015, 16:05.
Fix comments and comments formatting and names
79a72adc5c33
·daniel j. white on Aug 30 2015, 16:05.
PDFWriter file name: uses maskHash so remove "mask"
f83fb54e445e
·daniel j. white on Aug 30 2015, 16:04.
use a job name with the mask hash for results naming
fc2457b0af79
·daniel j. white on Aug 30 2015, 15:49.
write coloc job name at top of PDF output
d2734712c33c
·daniel j. white on Aug 30 2015, 15:49.
Coloc jobName; a ValueResult for use in ResultHandler implementations
4afd70fd2b78
·daniel j. white on Aug 30 2015, 15:49.
Remove old stale comments and fix comment typo
83bee3b0d009
·daniel j. white on Aug 30 2015, 15:49.
use same job name in all ResultHandlers
a7dafc9e9781
·daniel j. white on Aug 30 2015, 15:49.
Add main class to make development easier
43e1393cf017
·Tom Kazimiers / daniel j. white on Aug 30 2015, 15:49.
change autothreshold test to y-intercept:ch2Mean
c81b5edff10e
·daniel j. white on Aug 30 2015, 15:49.
fix macro recordability - remove " " from gd label
c4ef70887e3e
·daniel j. white on Aug 30 2015, 15:49.
input image stats/params/vals now in DataContainer
64cbd07c0f3a
·daniel j. white on Aug 30 2015, 15:49.
fix duplicated results writing into IJ.log
2d6ecf0b0f6e
·daniel j. white on Aug 30 2015, 15:48.
Tidy up comments and fix to be more specific
d84174a27a50
·daniel j. white on Aug 30 2015, 15:36.
UI: make regression type selection work with macros
dc9deb654875
·Tom Kazimiers / daniel j. white on Aug 30 2015, 15:36.
explanation comments, variables fraction coloc
5ee6f4319d10
·daniel j. white on Aug 30 2015, 15:36.
Rename objects and fix comments and javadoc
d2ea4bfadbed
·daniel j. white on Aug 30 2015, 15:29.
Fix Manders' split coefficients wrong channel check bug
e4a3a6ec36e0
·daniel j. white on Aug 30 2015, 15:28.

Jul 29 2015

Fix naming of bisection stepper
646d38da33d4
·Tom Kazimiers on Jul 29 2015, 03:59.

Feb 12 2015

Remove some unused imports
cce08cb8458d
·Tom Kazimiers on Feb 12 2015, 15:53.
Add original threshold regression of Costes
8c5e587512a5
·Tom Kazimiers on Feb 12 2015, 15:51.
Support text values in result handlers
e6ee043b3161
·Tom Kazimiers on Feb 12 2015, 15:46.

Feb 4 2015

Add stepper classes for different threshold walking patterns
0c86d3c24329
·Tom Kazimiers on Feb 4 2015, 23:36.

Jan 27 2015

Auto threshold regression: fix comment
f890be035206
·Tom Kazimiers on Jan 27 2015, 15:43.
Auto threshold regression: waslk channel two if slope below -1
4c7d570aff5b
·Tom Kazimiers on Jan 27 2015, 14:44.
Make auto threshold regression commutative wrt. channels
863fdbeaf778
·Tom Kazimiers on Jan 27 2015, 05:52.
Auto threshold regression: change comment slightly (minor)
5e8524b55543
·Tom Kazimiers on Jan 27 2015, 04:35.

Jan 25 2015

Fix some image data type variable initializations
52fb5c96d019
·Tom Kazimiers on Jan 25 2015, 03:06.

Jan 20 2015

Auto threshold regression: refactor type range checks
f9200259a8bf
·Tom Kazimiers on Jan 20 2015, 13:38.

Nov 6 2014

POM: bump to pom-fiji 5.0
af6eace721a8
·Curtis Rueden on Nov 6 2014, 04:58.

Nov 5 2014

Organize imports
58a8f73c12c8
·Curtis Rueden on Nov 5 2014, 20:23.

Mar 14 2014

Make sure calculated thresholds fit into image data type
5f6dd6d91250
·Tom Kazimiers on Mar 14 2014, 18:51.

Feb 11 2014

Merge pull request #69 from chalkie666/master
4fa48523f776
·dscho on Feb 11 2014, 16:09.
Coloc 2: fix flawed bin width calculation
8be1045451c8
·Johannes Schindelin on Feb 11 2014, 02:29.
Kendall Tau: avoid integer overflow
37db684dbfba
·Johannes Schindelin on Feb 11 2014, 02:29.

Feb 9 2014

send coloc numerical results to IJ.log for scraping batch results
045f6f05cc40
·chalkie666 on Feb 9 2014, 21:27.
get image names and use them in output
c7e2d6137192
·chalkie666 on Feb 9 2014, 21:04.
bug fix channel names
c2998e967d30
·chalkie666 on Feb 9 2014, 20:25.
fix channel names bug
2252daa0e0b0
·chalkie666 on Feb 9 2014, 20:22.

Jan 29 2014

Use the fast Kendall Tau-b algorithm instead of the naive one
2e678fa6501a
·Johannes Schindelin on Jan 29 2014, 20:51.
Add an efficient implementation of Kendall's Tau-b
a858d5d35bda
·Johannes Schindelin on Jan 29 2014, 20:51.
Add the IntArraySorter class
99a03d970929
·Johannes Schindelin on Jan 29 2014, 20:51.
Add the reset() method to the PairIterator
01cbead625dc
·Johannes Schindelin on Jan 29 2014, 20:51.
Make the TwinCursor a PairIterator
4857bff46b04
·Johannes Schindelin on Jan 29 2014, 20:51.
Use better names than getChannel1 and getChannel2
16242ac2e343
·Johannes Schindelin on Jan 29 2014, 20:51.

ijp-biop-run-macro/src/mainmasterd9f3613f194e13b010c19b1…

May 3 2017

May 1 2017

Feb 23 2017

Feb 2 2017

Feb 1 2017

Jan 30 2017

Jan 25 2017

Jan 24 2017

Jan 20 2017

Jan 19 2017

Jan 18 2017

Jan 10 2017

Jan 9 2017

Jan 5 2017

Jan 4 2017

Dec 29 2016

Dec 27 2016

Dec 1 2016

Nov 20 2016

Nov 15 2016

Jun 16 2016

Sep 19 2015

Sep 2 2015

Aug 30 2015

Jul 29 2015

Feb 12 2015

Feb 4 2015

Jan 27 2015

Jan 25 2015

Jan 20 2015

Nov 6 2014

Nov 5 2014

Mar 14 2014

Feb 11 2014

Feb 9 2014

Jan 29 2014

ijp-biop-run-macro/src/main
masterd9f3613f194e13b010c19b1…