Timeline


and

12/06/10:

17:36 Changeset [7349] by melissa
Added method to AWTImageTools for retrieving subimages. Readers now use …
16:39 Changeset [7348] by aivar
New code for passing images from one plugin to another.
16:39 Changeset [7347] by aivar
New code for passing images from one plugin to another.
16:39 Changeset [7346] by aivar
New code for passing images from one plugin to another.
16:39 Changeset [7345] by aivar
New code for passing images from one plugin to another.
16:38 Changeset [7344] by aivar
New code for passing images from one plugin to another.
16:38 Changeset [7343] by aivar
New code for passing images from one plugin to another.
16:38 Changeset [7342] by aivar
New code for passing images from one plugin to another.
16:37 Changeset [7341] by aivar
New code for passing images from one plugin to another.
16:37 Changeset [7340] by aivar
New code for passing images from one plugin to another.
16:33 Ticket #614 (Write documentation on which files can be picked in each format) created by melissa
It would be helpful if we had a document that listed what a user needs to …
15:08 Changeset [7339] by melissa
Fixed row reversal to work correctly with sub-images.
14:33 Changeset [7338] by melissa
Updated FEI reader to properly support sub-image reading.
13:57 Changeset [7337] by melissa
Fixed plane size and pixel offset calculations when opening a sub-image.
13:56 Changeset [7336] by melissa
Fixed MD5 calculations for planes whose SizeY is odd.
10:21 Ticket #613 (Investigate consolidating 'showinf' and 'bfview') created by melissa
Since 'showinf' does everything that 'bfview' does and then some, it might …
09:24 Changeset [7335] by melissa
Tagged 4.2.2 release of LOCI tools.
09:15 Changeset [7334] by melissa
Updated what's new for today's release.
08:51 Ticket #612 (Multi-channel indexed color images treated incorrectly) created by melissa
If I open data/ome-tiff/olaf/*.ome.tiff using "Plugins > LOCI > …

12/04/10:

13:09 Changeset [7333] by melissa
Initial version of generic screen reader. It still needs a lot of work, …

12/03/10:

19:24 Changeset [7332] by aivar
New code that implements a Deep Zoom plugin.
19:23 Changeset [7331] by aivar
New code that implements a Deep Zoom plugin.
19:23 Changeset [7330] by aivar
New code that implements a Deep Zoom plugin.
19:23 Changeset [7329] by aivar
New code that implements a Deep Zoom plugin using a primitive chainable …
19:23 Changeset [7328] by aivar
New code that implements a Deep Zoom plugin using a primitive chainable …
19:22 Changeset [7327] by aivar
New code that implements a Deep Zoom plugin using a primitive chainable …
19:22 Changeset [7326] by aivar
New code that implements a primitive chainable plugin interface.
19:22 Changeset [7325] by aivar
New code that implements a primitive chainable plugin interface.
19:22 Changeset [7324] by aivar
New code that implements a primitive chainable plugin interface.
19:22 Changeset [7323] by aivar
New code that implements a primitive chainable plugin interface.
19:21 Changeset [7322] by aivar
New code that implements a primitive chainable plugin interface.
19:21 Changeset [7321] by aivar
New code that implements a primitive chainable plugin interface.
19:21 Changeset [7320] by aivar
Some public domain code that launches a browser window.
16:50 Changeset [7319] by melissa
Added Ant target to run OMERO openBytes tests. To use it: 'ant …
16:28 Changeset [7318] by melissa
ImageTools.splitChannels now takes an extra int parameter that specifies …
14:37 Changeset [7317] by melissa
Make image names more easily identifiable in the original metadata.
13:26 Changeset [7316] by melissa
Return a blank plane if a TIFF file is missing, just like we do with many …
11:57 Changeset [7315] by callan
Script to run OMERO openBytes() tests on a suite of files on Hudson.
11:50 Changeset [7314] by callan
Fix a missing variable initialization in the OMERO openBytes() test case.
10:31 Changeset [7313] by callan
Test.java (from  omero:#3627) port to a full blown TestNG test case also …
08:55 Changeset [7312] by callan
Adding required ome-xml project to the test-suite component Eclipse …

12/02/10:

18:12 Ticket #611 (ICS export should preserve more metadata) created by melissa
Most importantly, physical dimensions and the number of valid bits per …
12:17 Changeset [7311] by melissa
A couple of fixes for reading a sub-image of the second channel in 2 …
11:30 Changeset [7310] by hinerm
Added code allowing jar paths and trailing slashes (or absence thereof) on …
03:18 Changeset [7309] by callan
Fix min/max calculation in the "slush" area outside the actual pixel count …

12/01/10:

21:57 Ticket #610 (Some AVI files have skewed scanlines) created by melissa
See files in data/avi/prairie/. The files play fine in mplayer, so we …
20:16 Changeset [7308] by aivar
Added binning, moved some enums, changed parameter order.
20:13 Changeset [7307] by aivar
Moved in fit region, function, and algorithm enums.
20:12 Changeset [7306] by aivar
Minor tweak; removed debugging printout.
20:11 Changeset [7305] by aivar
Used by3x3 and 5x5 binning subplugins. 7x7 anyone?
20:11 Changeset [7304] by aivar
Binning subplugin, sums 5x5 or pixel and 24 neighbors.
20:10 Changeset [7303] by aivar
Binning subplugin, sums 3x3 or pixel and its 8 neighbors.
20:09 Changeset [7302] by aivar
Finds all binning subplugins and builds a list of names to choose.
20:09 Changeset [7301] by aivar
Annotation that designates a binning subplugin.
20:08 Changeset [7300] by aivar
Interface that designated a binning subplugin.
20:07 Changeset [7299] by aivar
Moved fit function & region enums.
20:07 Changeset [7298] by aivar
Moved fit function & region enums.
20:06 Changeset [7297] by aivar
Moved fit function & region enums.
20:06 Changeset [7296] by aivar
Minor tweaks.
20:05 Changeset [7295] by aivar
Moved fit function & region enums.
20:04 Changeset [7294] by aivar
Added binning. Changed parameter order.
20:02 Changeset [7293] by aivar
ImageStack.addSlice method I was calling went away; substituted with a …
20:01 Changeset [7292] by aivar
Changed the parameter order. Tidied up.
19:59 Changeset [7291] by aivar
Changed the parameter order.
19:58 Changeset [7290] by aivar
Added method to get number of components in the fit.
19:57 Changeset [7289] by aivar
Removed methods to get/set chi square. Chi square is now kept along with …
19:54 Changeset [7288] by aivar
Added function to get number of components in the fit.
17:03 Changeset [7287] by melissa
Parse some more (undocumented) metadata from STK files, including channel …
16:29 Changeset [7286] by curtis
Fix problem with skipping past EOF.
16:29 Changeset [7285] by curtis
Add compression type to original metadata table.
07:57 Changeset [7284] by callan
Fixed minMaxDone population. Much more thorough test case that includes …
06:05 Changeset [7283] by callan
Solution for minima and maxima calculation when using block based …
04:11 Changeset [7282] by callan
Fix documentation locations and header comment in XML annotation test.

11/30/10:

11:34 Ticket #609 (Add option to bfconvert for saving autoscaled images) created by melissa
Right now, bfconvert always saves images using the same bit depth as the …
10:46 Changeset [7281] by hinerm
Corrected a missing end brace in the BFITK plug-in code.
09:11 Changeset [7280] by melissa
Close readers left open by the openImage/openSubImage macro functions.

11/29/10:

19:30 Ticket #608 (Zip file URLs are not supported) created by melissa
For example: […] produces this lovely exception: […] It should …
19:14 Changeset [7279] by melissa
Merged Autoscale help text changes into 4.2: r7276, r7277, and r7278.
19:12 Changeset [7278] by melissa
Fixed one more typo.
17:21 Changeset [7277] by curtis
Fix typo.
16:01 Changeset [7276] by curtis
Clarify Autoscale help text. These changes are based on updated text …
12:54 Changeset [7275] by melissa
Updated metadata support documentation.
11:53 Changeset [7274] by melissa
Updated version numbers to 4.3-DEV.
11:52 Changeset [7273] by melissa
Updated version numbers to 4.2.2.
10:57 Changeset [7272] by melissa
Merged r7256 into 4.2.
10:56 Changeset [7271] by melissa
Merged r7255 and r7257 into 4.2.
10:55 Changeset [7270] by melissa
Merged r7253 into 4.2.
10:55 Changeset [7269] by melissa
Merged FV1000 reader changes into 4.2: r7249 and r7250.
10:54 Changeset [7268] by melissa
Merged r7245 into 4.2.
10:54 Changeset [7267] by melissa
Merged r7239 into 4.2.
10:53 Changeset [7266] by melissa
Merged BufferedImage unpacking fixes into 4.2: r7236 and r7254.
10:51 Changeset [7265] by melissa
Merged r7228 to 4.2.
10:49 Changeset [7264] by melissa
Merged r7225 into 4.2.
10:47 Changeset [7263] by melissa
Merged file handle fix and tests into 4.2: r7226, r7230, and r7231.
10:44 Changeset [7262] by melissa
Merged ImageJ plugin changes into 4.2: r7210, r7238, and r7258.
10:41 Changeset [7261] by melissa
Merged r7220 into 4.2.
10:13 Changeset [7260] by melissa
* Skip over empty .lsm files instead of throwing an EOFException. * …
09:19 Changeset [7259] by melissa
Improved stage position parsing.

11/26/10:

17:31 Changeset [7258] by melissa
Fixed ImagePlus retrieval methods so that the calibration is properly …
15:52 Changeset [7257] by melissa
Fixed calculation in r7255 so that tests pass again.
15:33 Changeset [7256] by melissa
Fixed interleaving bugs in ImageInfo and ImageTools.make24Bits.
15:33 Changeset [7255] by melissa
Better image count calculation; this fixes the case when we have multiple …
15:32 Changeset [7254] by melissa
Fixed small bug in r7236 that prevented multi-channel 16-bit …
15:31 Changeset [7253] by melissa
Fixed APNG writer to properly handle interleaved little-endian data.
11:21 Ticket #607 (Drag and drop on shortcut window produces "Open" dialog) closed by melissa
fixed: (In [7252]) Fixed dragging and dropping so that an "Open" dialog is not …
11:21 Changeset [7252] by melissa
Fixed dragging and dropping so that an "Open" dialog is not shown and …
10:24 Changeset [7251] by melissa
Catch IOException when parsing ROIs, so that we can still read the file if …

11/25/10:

14:32 Changeset [7250] by curtis
Better parsing of ValidBitCounts.
14:13 Changeset [7249] by curtis
Add debugging statements for FV1000 INI entries.
11:27 Changeset [7248] by callan
Merging r7247 from Trunk.
05:37 Changeset [7247] by callan
Restoring XML annotation write testing (See  omero:#3269); re-run of code …

11/24/10:

16:04 Changeset [7246] by melissa
Fixed channel name population.
15:47 Ticket #607 (Drag and drop on shortcut window produces "Open" dialog) created by melissa
It really shouldn't do that, since we've already specified which file …
15:31 Changeset [7245] by curtis
Add ability to specify bitsPerPixel to fake reader.
12:46 Changeset [7244] by melissa
Fixed dimension adjustment for spool files.
12:38 Ticket #606 (Try to eliminate the updater's file renaming requirement on Windows) created by melissa
10:37 Changeset [7243] by callan
Merging r7240,r7241 and r7242 from Trunk.
09:38 Changeset [7242] by callan
These types of comparisons no longer work and the XML annotation test …
09:16 Changeset [7241] by callan
Fix build, making sure that the stylesheet is included in the ome-xml JAR.
07:13 Changeset [7240] by callan
Proper XML annotation support (See  omero:#3269); re-run of code …

11/23/10:

19:31 Ticket #605 (OMEXMLMetadata objects used by OMETiffWriter can not be re-used) closed by melissa
fixed: (In [7239]) Remove BinData elements from a copy of the writer's …
19:31 Changeset [7239] by melissa
Remove BinData elements from a copy of the writer's MetadataRetrieve, …
17:37 Changeset [7238] by melissa
* Added macro functions for retrieving physical size and version …
16:50 Changeset [7237] by melissa
Preserve physical pixel sizes when writing vanilla TIFF files.
16:27 Changeset [7236] by melissa
* Properly unpack 16-bit BufferedImages into a byte array. Fix courtesy …
10:53 Changeset [7235] by melissa
Override get*BitLookupTable() methods so that files with a different LUT …
10:19 Changeset [7234] by hinerm
Updated the bf-itk plug-in so that it no longer tries to instantiate a JVM …

11/22/10:

13:21 Changeset [7233] by aivar
Formatting change only.
13:09 Changeset [7232] by aivar
Added dialog to choose what to display, was hard-coded.
11:51 Changeset [7231] by melissa
Use an ImageWriter instead of a TiffWriter so that OME-TIFF files are …
11:31 Changeset [7230] by callan
File handle open/close logging at the TRACE level and a test case to pick …
10:35 Changeset [7229] by melissa
Prevent NPEs if detector metadata is missing.
10:30 Ticket #597 (Add support for .aim files) closed by melissa
fixed: (In [7228]) Added reader for .aim files. Closes #597.
10:30 Changeset [7228] by melissa
Added reader for .aim files. Closes #597.
09:24 Changeset [7227] by melissa
Use the sum of all position values stored for a particular position …
07:28 Changeset [7226] by callan
Attempt to fix issues with leaking file handles during planar writing …

11/19/10:

19:59 Changeset [7225] by melissa
Switched getPixelTypes()/getPixelTypes(String) delegation, so that …
16:35 Changeset [7224] by melissa
Fixed pixel offset bug.
14:45 Ticket #596 (Recorded macros contain "open" twice) closed by melissa
fixed: (In [7223]) Prevent the 'open' option from being recorded twice. Closes …
14:45 Changeset [7223] by melissa
Prevent the 'open' option from being recorded twice. Closes #596. This …
11:42 Ticket #586 (Preserve custom color options) closed by melissa
fixed: (In [7222]) Preserve custom color choices. Closes #586.
11:42 Changeset [7222] by melissa
Preserve custom color choices. Closes #586.
10:40 Ticket #605 (OMEXMLMetadata objects used by OMETiffWriter can not be re-used) created by melissa
This will fail: […] because the writer strips out the (required) …

11/18/10:

11:33 Changeset [7221] by hinerm
Modified build.xml to copy platform-specific files from the …

11/17/10:

06:10 Ticket #604 (Move "no OME-XML" message out of OMETiffReader) created by melissa
...mostly so that we can remove the OMETiffReader import from …
05:28 Ticket #569 (Add support for JPEG-compressed AVIs) closed by melissa
fixed: (In [7220]) Added support for JPEG-compressed AVIs. Closes #569.
05:28 Changeset [7220] by melissa
Added support for JPEG-compressed AVIs. Closes #569.
03:19 Changeset [7219] by melissa
Merged r7179 into 4.2.
03:14 Ticket #525 (Files cannot be saved from ImageViewer unless '-omexml' option was passed ...) closed by melissa
fixed: (In [7218]) Fixed ImageViewer's default metadata population; closes #525.
03:14 Changeset [7218] by melissa
Fixed ImageViewer's default metadata population; closes #525.

11/16/10:

20:50 Changeset [7217] by aivar
Fixed bug. Now each channel can have it's own unique ranges for …
20:32 Changeset [7216] by aivar
Added logic to calculate nearest two digit values for minimum and maximum. …
20:29 Changeset [7215] by aivar
New abstract base class for multiple color interpolation colorizers.
20:29 Changeset [7214] by aivar
Added new method to generate a color bar. Added javadoc.
20:29 Changeset [7213] by aivar
Added new method to generate a color bar. Added javadoc.
20:28 Changeset [7212] by aivar
Added new method to generate a color bar. Added javadoc.
13:16 Ticket #598 (ImageViewer's file chooser extensions are wrong) closed by melissa
fixed: (In [7211]) Fixed FileFilter construction method so that it unwraps …
13:16 Changeset [7211] by melissa
Fixed FileFilter construction method so that it unwraps WriterWrappers. …
05:38 Ticket #603 (Move get/setMetadataOptions methods to IFormatReader) created by melissa
Both methods are implemented in FormatReader, but should be declared in …
05:34 Ticket #602 (Move MetadataLevel, MetadataOptions, and DefaultMetadataOptions) created by melissa
All three classes should be moved from loci.formats.in to loci.formats.
05:05 Ticket #601 (Investigate using MediaUtil for block-based JPEG decoding) created by melissa
See:  http://mediachest.sourceforge.net/mediautil This would be …
04:34 Ticket #600 (Make sure that JPEG-2000 decoding works in parallel) created by melissa
We would like to be able to decode JPEG-2000 tiles (as stored in histology …
03:55 Ticket #599 (Add optimal tile size methods) created by melissa
Add new methods to IFormatReader that return the optimal tile width and …
02:50 Ticket #590 (Series dialog should indicate the total number of series) closed by melissa
fixed: (In [7210]) Added series count to series dialog. Closes #590.
02:50 Changeset [7210] by melissa
Added series count to series dialog. Closes #590.

11/15/10:

20:32 Changeset [7209] by aivar
Display plugin, in progress.
16:48 Changeset [7208] by melissa
Backported r7207 to 4.2.
16:31 Changeset [7207] by melissa
Switched around tag parsing so that missing UIC2/UIC4 tags do not prevent …

11/12/10:

21:30 Changeset [7206] by aivar
Added analysis plugin. Made gray scale a separate class.
21:16 Changeset [7205] by aivar
Kludged up this class to fix a problem with IJ's StackWindow.
21:13 Changeset [7204] by aivar
Interface that communicates pixel selection by clicking on the gray scale …
21:10 Changeset [7203] by aivar
Made a separate interface to display the gray scale image. Handles …
21:09 Changeset [7202] by aivar
Made a separate class to display the gray scale image. Handles multiple …
21:09 Changeset [7201] by aivar
Tidied up comment.
21:08 Changeset [7200] by aivar
Loads a plugin to analyze fit results, using SezPoz.
21:07 Changeset [7199] by aivar
Annotation for plugins that analyze fit results.
21:07 Changeset [7198] by aivar
Interface for plugins that analyze fit results.
21:05 Changeset [7197] by aivar
A VisAD analysis plugin.
21:05 Changeset [7196] by aivar
Stub of an export to text plugin.
21:04 Changeset [7195] by aivar
Dynamically sets minimum, as well as maximum. TIdied up code & added …
21:03 Changeset [7194] by aivar
Dynamically sets minimum, as well as maximum. TIdied up code & added …
21:03 Changeset [7193] by aivar
Dynamically sets minimum, as well as maximum. TIdied up code & added …
21:03 Changeset [7192] by aivar
Dynamically sets minimum, as well as maximum. TIdied up code & added …
21:02 Changeset [7191] by aivar
Dynamically sets minimum, as well as maximum. TIdied up code & added …
21:02 Changeset [7190] by aivar
Dynamically sets minimum, as well as maximum. TIdied up code & added …
21:02 Changeset [7189] by aivar
Dynamically sets minimum, as well as maximum. TIdied up code & added …
21:02 Changeset [7188] by aivar
Dynamically sets minimum, as well as maximum. TIdied up code & added …
21:01 Changeset [7187] by aivar
Save channel with pixel, as well as x and y.
21:01 Changeset [7186] by aivar
Save channel with pixel, as well as x and y.
13:02 Milestone bio-formats-4.2.1 completed
12:24 Changeset [7185] by melissa
Tagged 4.2.1 release of LOCI tools.
10:08 Ticket #598 (ImageViewer's file chooser extensions are wrong) created by melissa
If you select "File > Save" from ImageViewer, the resulting file chooser …
09:58 Changeset [7184] by melissa
Updated version numbers to "4.2.1".
08:49 Changeset [7183] by melissa
Fixed a couple of bugs in ImageConverter.
08:46 Ticket #525 (Files cannot be saved from ImageViewer unless '-omexml' option was passed ...) reopened by melissa
With this command: […] This exception now appears when trying to save …

11/11/10:

11:13 Ticket #597 (Add support for .aim files) created by melissa
See files in data/aim/harry. The image dimensions start at 0x38; they are …
09:04 Changeset [7182] by melissa
Updated what's new for today's release.

11/10/10:

09:30 Changeset [7181] by hinerm
Updated post-build instructions to reflect the removal of ITKFactories …
09:27 Changeset [7180] by hinerm
Modified CmakeLists.txt for the BF-ITK build so that it will no longer …

11/09/10:

16:52 Changeset [7179] by curtis
Add BitsPerPixel to Bio-Formats Importer's Original Metadata window.
15:42 Ticket #596 (Recorded macros contain "open" twice) created by melissa
If you attempt to record a macro for the Bio-Formats Importer plugin, you …
15:26 Changeset [7178] by melissa
Don't correct the channel count in the case of RGB images.
10:01 Changeset [7177] by rlentz
Added developer comments
09:48 Changeset [7176] by rlentz
Test Update

11/08/10:

20:58 Changeset [7175] by melissa
Changed ome-io component back to using Java 1.5.
12:23 Changeset [7174] by melissa
* Updated stylesheets to  ome-xml:r692. * Added test for Channel.Color.
11:26 Changeset [7173] by rlentz
Demo using EJB components on Glassfish, supporting multi-language …
11:20 Changeset [7172] by rlentz
Demo using EJB components on Glassfish, supporting multi-language …
11:19 Changeset [7171] by rlentz
Initial import of the 'server side' implementation for the EJB, Hessian …
10:50 Changeset [7170] by rlentz
Demo using EJB components on Glassfish, supporting multi-language …

11/06/10:

09:50 Changeset [7169] by melissa
Backported r6515, r6527, and most of r7071 to fix a few problems with …
Note: See TracTimeline for information about the timeline view.