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Diffusion BIOP Run Macro (master) Graph

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CommitAuthorDetailsCommitted
dd016cccfbe8Tom Kazimiers
Coloc 2: Make Pearsons Algorithm a bit more consistent, use error values 
Feb 20 2011
4689ee59c159Tom Kazimiers
Coloc 2: State number of iterations done on numerical error in Pearsons 
Feb 20 2011
895181d6d658Tom Kazimiers
Coloc 2: Let Fiji handle the MissingPreconditionExceptions 
Feb 20 2011
534eba45bd3bTom Kazimiers
Coloc 2: Make irregular ROI/mask test case simpler 
Feb 20 2011
4613ac7f5684Tom Kazimiers
Coloc 2: Make stick noise generation accassible without auto smoothing 
Feb 20 2011
941569d98760Tom Kazimiers
Coloc 2: Fix use of ImageJ in noise image generation for test images 
Feb 20 2011
b9959f588de7Daniel James White/Tom Kazimiers
Coloc 2: Add one more Pearsons test with random noise data 
Feb 20 2011
bb1a3a9a4d0eDaniel James White/Tom Kazimiers
Coloc 2: Add a basic Costes significance test case 
Feb 20 2011
b0dc7d814a40Daniel James White/Tom Kazimiers
Coloc 2: Add missind comment to mean based noise image generation method 
Feb 20 2011
ab09cb4aeeffDaniel James White/Tom Kazimiers
Coloc 2: Add another random image generation method, it spreads random sticks 
Feb 20 2011
b12eb8e55259Daniel James White/Tom Kazimiers
Coloc 2: Make the data generated by Costes (e.g. P-Valu) accessible through… 
Feb 20 2011
080904f047f6Daniel James White/Tom Kazimiers
Coloc 2: new test image creation method for images with a mean and a spread of… 
Feb 20 2011
9c66d2959aa6Daniel James White/Tom Kazimiers
Coloc 2: make testImage creation methods public 
Feb 20 2011
2af57cb09b8aDaniel James White/Tom Kazimiers
Coloc 2: add test for if only 1 image is open 
Feb 20 2011
84578fb00580Daniel James White/Tom Kazimiers
Coloc 2: made a gaussian smooth method in the testImageAcessor class 
Feb 20 2011
6feff976b720Daniel James White/Tom Kazimiers
Coloc 2: remove override annotations for eclipse on mac can do the junit tests 
Feb 20 2011
3460046cc363Tom Kazimiers
Coloc 2: Make PDF count for multi rois start start with one 
Feb 20 2011
30a52606f3a3Tom Kazimiers
Coloc 2: Style changes 
Feb 20 2011
c92210835267Tom Kazimiers
Coloc 2: Add basic irregular ROI/mask test. Mask self with self and inverted 
Feb 20 2011
f078dee6de2aTom Kazimiers
Coloc 2: Add helper methods for tests to invert imglib images 
Feb 20 2011
f1df82a5f470Daniel James White/Tom Kazimiers
Coloc 2: Allow masks to be specified as separate images 
Feb 20 2011
747233aa0579Daniel James White/Tom Kazimiers
Coloc 2: Select the correct Fiji image when importing masks 
Feb 20 2011
6bc0b7742897Daniel James White/Tom Kazimiers
Coloc 2: Add own little bounding box class to represent multi-dim BBs 
Feb 20 2011
888ae16cdc25Daniel James White/Tom Kazimiers
Coloc 2: Add lost functionality to colocalise images withoul ROI/mask 
Feb 20 2011
08ad99cbd48dDaniel James White/Tom Kazimiers
Coloc 2: Move our imglib modifications to the right namespace 
Feb 20 2011
920cd0b527f3Tom Kazimiers
Coloc 2: Add "_mask_<staticCounter>" to PDF file names if mask/ROI in use 
Feb 20 2011
631f286a68bbTom Kazimiers
Coloc 2: Let the DataContainer know whether there is a regular ROI in use 
Feb 20 2011
a23eea34ba5aTom Kazimiers
Coloc 2: Remove unnecessary if and complain about missing separte image masks 
Feb 20 2011
c6ec56d45813Tom Kazimiers
Coloc 2: Make Image data handling in EasyDisplay more type safe 
Feb 20 2011
e159abb4e0aeTom Kazimiers
Coloc 2: Do some generics argument adding, clean up, code police 
Feb 20 2011
7e5d4bf7374fTom Kazimiers
Coloc 2: Add basic multi ROI support 
Feb 20 2011
83adab3c1b62Tom Kazimiers
Coloc 2: Tests: Change sample image type to UnsignedByteType 
Feb 20 2011
fbc942924a9aTom Kazimiers
Coloc 2: Add simple test case for regular ROIs 
Feb 20 2011
1e8cf3a2803dTom Kazimiers
Coloc 2: Change package declaration of ImageStatistics to reflect folders 
Feb 20 2011
dd0d04893660Tom Kazimiers
Coloc 2: be more friendly at RoiImage initialisation 
Feb 20 2011
83ec3afc187fTom Kazimiers
Coloc 2: Move image statistics class to better fitting namespace 
Feb 20 2011
38731e4045ccTom Kazimiers
Coloc 2: Fix typo in gadgets folder 
Feb 20 2011
03e4c0b1e934Tom Kazimiers
Coloc 2: For now disable the display of the shuffled date from Costes 
Feb 20 2011
c10ccc3e62c6Tom Kazimiers
Coloc 2: Allow masking in Costes stasitical significance test 
Feb 20 2011
2fbc9492f8a0Tom Kazimiers
Coloc 2: Remember a masks bounding box clipped version 
Feb 20 2011
71640c6be85bTom Kazimiers
Coloc 2: Let the MaskImage use the LocalizableByDimCursor from RoiImage 
Feb 20 2011
e2f2392158a6Tom Kazimiers
Coloc 2: Reuse LocalizablePlaneCursor from super cusors in Roi/Mask 
Feb 20 2011
8fda1427eb47Tom Kazimiers
Coloc 2: In RoiImage return 1 if dimension request is out of range 
Feb 20 2011
d43de45fd202Tom Kazimiers
Coloc 2: Remove override for factory and image creation methods in RoiImage 
Feb 20 2011
421098ef20ebTom Kazimiers
Coloc 2: In Costes, create OutOfBounds ROICursors through image types 
Feb 20 2011
1ff364e98842Tom Kazimiers
Coloc 2: Style changes 
Feb 20 2011
f8e95e85c0d6Tom Kazimiers
Coloc 2: Require the offset and the size of a masks bounding box 
Feb 20 2011
c0144f22f82eTom Kazimiers
Coloc 2: Encapsulate irregular IJ mask preparation in own method 
Feb 20 2011
ab8360b65c59Tom Kazimiers
Coloc 2: Let the mask cursor repeat the mask if it went through it 
Feb 20 2011
744469522413Tom Kazimiers
Coloc 2: Add ROI/mask image (if present) to result set 
Feb 20 2011
af91b413aa77Tom Kazimiers
Coloc 2: Let RoiImage use RoiShiftingLocalizableCursor 
Feb 20 2011
d841fe090453Tom Kazimiers
Coloc 2: Clone ROI information in RoiImage, data must be no reference here 
Feb 20 2011
75c78997642cTom Kazimiers
Coloc 2: Add a LocalizableByDim cursor that shifts ROI cursor reguests 
Feb 20 2011
745130554bb3Tom Kazimiers
Coloc 2: Add a RoiImageFactory 
Feb 20 2011
498a29defbb5Tom Kazimiers
Coloc 2: Add MaskedImageFactory to create new images based on MaskedImages 
Feb 20 2011
817874919522Tom Kazimiers
Coloc 2: Add some image properties to the RoiImage 
Feb 20 2011
03a1a9295789Tom Kazimiers
Coloc 2: Make MaskCursor hierarchy deal with mask image insdead mask image 
Feb 20 2011
ebd93d98a514Tom Kazimiers
Coloc 2: Make members of ConstraintCursor protected 
Feb 20 2011
941711f0d5e7Tom Kazimiers
Coloc 2: Let the ROI cursors in Costes' be implicitely by the image type 
Feb 20 2011
7717a9c26899Tom Kazimiers
Coloc 2: Split MaskCursor in MaskCursor and MaskLocalizableCursor 
Feb 20 2011
612f7b21fbe4Tom Kazimiers
Coloc 2: Style changes 
Feb 20 2011
1668807d4d09Tom Kazimiers
Coloc 2: Remve not needed roi usage indicator variable 
Feb 20 2011
2b8f0d4e5b8fTom Kazimiers
Coloc 2: Add ROI/Mask selection to GUI 
Feb 20 2011
a0cca6fd0d74Tom Kazimiers
Coloc 2: Style changes 
Feb 20 2011
7d3b617723e4Tom Kazimiers
Coloc 2: Let the plugin allow ROIs again, now arbitrary shaped 
Feb 20 2011
7e5fe0b13de6Tom Kazimiers
Coloc 2: The DataContainer can now create MaskedImages if required 
Feb 20 2011
305a24545c73Tom Kazimiers
Coloc 2: Add MaskedImage 
Feb 20 2011
0b0c663d5693Tom Kazimiers
Coloc 2: Make MaskCursor a LocalizableCursor and change the typing 
Feb 20 2011
27c7ac4ca4aeTom Kazimiers
Coloc 2: Add ForwardMode setter to ConstraintCursor 
Feb 20 2011
25214f0ca681Tom Kazimiers
Coloc 2: Make the MetaCursor implement the Cursor interface. 
Feb 20 2011
4d2b7fa5ba7eTom Kazimiers
Coloc 2: Add ConstraintCursor to make TwinValueRangeCursor logic reusable 
Feb 20 2011
ba4af822eb98Tom Kazimiers
Coloc 2: Add basic mask cursor implementation 
Feb 20 2011
5cc5097d828aTom Kazimiers
Coloc 2: Style and Comment changes for TwinValueRangeCursor 
Feb 20 2011
3f8591265459Tom Kazimiers
Coloc 2: Add a missing class to the imglib extensions: MetaCursor 
Feb 20 2011
be16034dd9a0Tom Kazimiers
Coloc 2: In PDF output add no horizontal rule after last image 
Feb 20 2011
b2a7c32c489aTom Kazimiers
Coloc 2: Fix PDF output of images 
Feb 20 2011
a59a053b7217Tom Kazimiers
Coloc 2: Make package folder names lower case 
Feb 20 2011
bf65ac1c9f3dTom Kazimiers
Coloc 2: Use new package of TypeConverter 
Feb 20 2011
43266c5c98e0Daniel James White/Tom Kazimiers
Coloc 2: explicit GPL license text added... just in case. 
Feb 20 2011
d6aaeeaa3b25Daniel James White/Tom Kazimiers
Coloc 2: Style change 
Feb 20 2011
69e0cff26ba9Daniel James White/Tom Kazimiers
Coloc 2: Add basic Li ICQ test cases 
Feb 20 2011
75a784cfab00Daniel James White/Tom Kazimiers
Coloc 2: Add basic unit tests for Pearsons correlation 
Feb 20 2011
a0895152b030Daniel James White/Tom Kazimiers
Coloc 2: Add abstract test case super class for keeping images 
Feb 20 2011
7b23acc0b441Daniel James White/Tom Kazimiers
Coloc 2: Add class to load images from Jar and to generate noise images for… 
Feb 20 2011
867408240e62Daniel James White/Tom Kazimiers
Coloc 2: Add pair of zero coloc. and pair of positive coloc. test images 
Feb 20 2011
0088d69ea5fdDaniel James White/Tom Kazimiers
Coloc 2: Make Li's ICQ calculation static 
Feb 20 2011
2999c37a6289Daniel James White/Tom Kazimiers
Coloc 2: Catch press on cancel button on PDF save dialog 
Feb 20 2011
199cf8136832Daniel James White/Tom Kazimiers
Coloc 2: Removed some wrong Override-Statements 
Feb 20 2011
d30e7e98f5a2Daniel James White/Tom Kazimiers
Coloc 2: Add package information to all files 
Feb 20 2011
bad73128afb8Daniel James White/Tom Kazimiers
Coloc 2: allow multiple ResultHandlers to be run 
Feb 20 2011
66f3a14c33cfDaniel James White/Tom Kazimiers
Coloc 2: deleted as moved this functionality into PDFWriter as it was the only… 
Feb 20 2011
c5d94a39c79cDaniel James White/Tom Kazimiers
Coloc 2: PDFwriter is now independent of ResultsCollector 
Feb 20 2011
5377dde22680Daniel James White/Tom Kazimiers
Coloc 2: Make paragraph a local variable 
Feb 20 2011
7fd4f7cacedcDaniel James White/Tom Kazimiers
Coloc 2: A PDF writer "display" class - this will be a standardized format. 
Feb 20 2011
14fc53d645f7Daniel James White/Tom Kazimiers
Coloc 2: ResultsCollector class for organising the resukts before deciding how… 
Feb 20 2011
714ad57b9195Daniel James White/Tom Kazimiers
Coloc 2: move ValueResult to its own separate class for resuse 
Feb 20 2011
96299ab7b3b4Daniel James White/Tom Kazimiers
Coloc 2: Add another precondition check for Pearsons execute method 
Feb 20 2011
361772adeb66Daniel James White/Tom Kazimiers
Coloc 2: Add try/catch block to auto threshold regression 
Feb 20 2011
962fb27fb1f1Daniel James White/Tom Kazimiers
Coloc 2: IJ macro added to generate test data of many dots then smoothed. 
Feb 20 2011
605a3a5053e5Daniel James White/Tom Kazimiers
Coloc 2: small test data images. 
Feb 20 2011
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