Timeline


and

09/21/09:

20:34 Changeset [5492] by melissa
* Removed channel reordering logic. * Fixed channel naming and …
17:16 Changeset [5491] by melissa
Fixed LogicalChannel, Detector, and Filter population.
15:55 Changeset [5490] by curtis
Combine MetadataStore and MetadataRetrieve Ice interfaces into one …
13:27 Changeset [5489] by melissa
* Parse Mask ROIs from MIAS overlay TIFFs. * Fixed a bug in Base64 …
12:40 Changeset [5488] by curtis
Clean up dependencies.
10:35 Changeset [5487] by melissa
* Fix for OMERO QA #284. * Fixed a few bugs exposed by findbugs.
08:38 Changeset [5486] by melissa
Added findbugs target to root. This change is courtesy of Josh Moore.

09/19/09:

13:44 Changeset [5485] by melissa
Make sure that OMEXMLMetadata objects returned by …

09/18/09:

15:53 Changeset [5484] by melissa
Lots of work on metadata correction/completeness for Leica LEI.
11:43 Changeset [5483] by curtis
Fix some Eclipse warnings.
11:43 Changeset [5482] by curtis
Fix build problems with bf-ice.
11:35 Ticket #408 (Exception when opening files with > 512 series in ImageJ) closed by melissa
fixed: (In [5481]) An exception is no longer thrown if there are more than 512 …
11:35 Changeset [5481] by melissa
An exception is no longer thrown if there are more than 512 series. …
11:23 Changeset [5480] by curtis
Rename Eclipse project.
11:22 Changeset [5479] by curtis
Rename Bio-Formats Ice component to bf-ice.
10:18 Changeset [5478] by curtis
Fix some Eclipse problems and warnings.
08:46 Changeset [5477] by melissa
* Allow CellomicsReader to read *.dib (uncompressed bitmap) files. * …
07:53 Changeset [5476] by melissa
Fixed NPE.

09/17/09:

13:23 Changeset [5475] by callan
Fixed Eclipse classpath.
08:47 Changeset [5474] by melissa
Make sure that wells are sorted in the same order.

09/16/09:

21:35 Changeset [5473] by melissa
* Fixed problems exposed by directory import testing. * Minor progress on …
10:37 Changeset [5472] by melissa
* Removed calls to getGlobalMeta(String). * Background images are now …

09/15/09:

20:56 Changeset [5471] by dscho
Add an AmiraMesh reader This reader, authored by Gregory Jefferis and …
14:23 Changeset [5470] by melissa
* Fixed how findString(String...) behaves if there are multiple arguments. …

09/14/09:

13:14 Changeset [5469] by melissa
Make sure that LogicalChannel.Name is populated for InCell datasets.
11:11 Changeset [5468] by melissa
Do not group multiple plates together.
10:15 Changeset [5467] by curtis
Reorder generated OME-XML using the reorder-2008-09.xsl stylesheet.
08:08 Changeset [5466] by melissa
Fixed off-by-1 in Well.Column.

09/11/09:

15:29 Changeset [5465] by curtis
Throw FormatException if ImageIO returns an invalid BufferedImage.
13:41 Changeset [5464] by melissa
Fixed problem with datasets that have more than 4 channels and multiple Z …

09/10/09:

19:48 Changeset [5463] by curtis
Update Bio-Formats Ice package.
19:41 Changeset [5462] by curtis
Update Ice library to 3.3.1 from 3.2.1.
19:32 Changeset [5461] by curtis
Remove superfluous/obsolete call to MetadataStore.setImageObjective.
19:18 Changeset [5460] by curtis
MetadataStore changes: * Populate ROIs in Image, not DisplayOptions. * …
19:17 Changeset [5459] by curtis
Map timestamp and ROI metadata for LI-FLIM format; thanks to Nick Perry.
19:16 Changeset [5458] by curtis
Use new DateTools.getMillisFromTicks convenience method.
19:16 Changeset [5457] by curtis
Add convenience method for working with split dates in ticks (COBOL).
15:02 Changeset [5456] by curtis
Explicitly print contents of arrays.
13:52 Changeset [5455] by curtis
Simple utility for dumping all TIFF IFDs.
13:40 Changeset [5454] by curtis
First working (?) version of LI-FLIM reader.
13:39 Changeset [5453] by curtis
Fix bugs in float/double normalization algorithm.
09:52 Changeset [5452] by melissa
Override 'void close(boolean)', so that native/legacy readers are closed …

09/09/09:

16:12 Changeset [5451] by melissa
Allow the configuration file to specify multiple folders for a single …
09:21 Changeset [5450] by melissa
Throw a more informative exception if the companion file directory is …

09/08/09:

15:16 Ticket #414 (Serialize reader state) created by curtis
Some formats take a long time to parse. Often the reader implementations …
14:47 Changeset [5449] by curtis
Make DataTools.indexOf work better with nulls.
13:34 Ticket #401 (Split TiffTools into multiple utility classes) closed by curtis
fixed: This work has been completed, with logic split into several classes in a …
08:28 Changeset [5448] by melissa
Use stored Z step and time increment instead of calculating these values.

09/07/09:

15:45 Changeset [5447] by melissa
Minor cleanup, including removal of unused imports and use of generics.
14:18 Changeset [5446] by melissa
Search for .flex files in the 'Screening' and 'Archive' directories of the …
12:43 Changeset [5445] by melissa
Added utility to check for unused imports.
10:09 Changeset [5444] by melissa
Updated metadata documentation.

09/06/09:

23:21 Changeset [5443] by curtis
Fix some Eclipse warnings.
23:03 Changeset [5442] by curtis
Fix Eclipse compile errors.

09/04/09:

14:32 Changeset [5441] by curtis
Initial version of LI-FLIM reader; openBytes is not yet implemented.
13:42 Changeset [5440] by curtis
INI parser improvements: * Add support for chapters. * Add …
11:44 Changeset [5439] by curtis
Add convenience method for reading entire file into a string.
11:29 Changeset [5438] by melissa
* Improved plate/well directory detection. * Throw more informative …
07:59 Changeset [5437] by melissa
Fixed NPE in getUsedFiles(boolean).

09/03/09:

19:04 Changeset [5436] by curtis
Fix seeking bug.
18:34 Changeset [5435] by curtis
Add RandomAccessInputStream.findString methods for efficiently searching …
12:17 Changeset [5434] by melissa
Override ImageProcessor.getStatistics(int, int, double, double) to prevent …
12:02 Ticket #413 (Very large images cannot be saved) created by melissa
The current writer API operates on full images. This causes problems when …

09/02/09:

14:49 Changeset [5433] by melissa
Print a warning if SamplesPerPixel is null (instead of throwing an …
14:28 Changeset [5432] by melissa
* Fixed endianness bug in TiffParser.planarUnpack. * Improved CellR …
12:02 Changeset [5431] by melissa
Don't assume that the dimension order is XYCZT.

09/01/09:

15:42 Changeset [5430] by melissa
Fix for (valid) element lengths between 0x8000 and 0xffff inclusive.
14:36 Changeset [5429] by melissa
Fixed FilterSet validation problems.
13:36 Changeset [5428] by melissa
Fix for reading datasets with more than 999 images in a single dimension. …
10:19 Changeset [5427] by melissa
Fix for datasets where the file names are listed before the directory …
09:34 Ticket #412 (Add support for scanning microscopy formats) created by melissa
We have source code from Image SXM for handling several scanning …

08/31/09:

16:22 Changeset [5426] by melissa
Only allow a series to be indexed if it is not RGB.
16:03 Changeset [5425] by melissa
Added FormatHandler.checkSuffix(String, String); fixes compile error.
15:43 Changeset [5424] by melissa
First version of multi-server/configuration logic.
13:07 Changeset [5423] by curtis
Fix for latest version of View5D plugin.
12:14 Changeset [5422] by curtis
Minor tweaks, for clarity.
08:06 Changeset [5421] by melissa
Respect isGroupFiles() when doing file grouping.

08/30/09:

13:17 Changeset [5420] by melissa
* Prevent NPE when constructing indexed color BufferedImages. * A handful …

08/27/09:

17:18 Changeset [5419] by curtis
Add a program for testing RandomAccessInputStream performance.
16:36 Ticket #411 (Add support for Olympus ScanR) created by melissa
ScanR is a multi-file TIFF/XML format for high-content screening. See …
15:11 Changeset [5418] by curtis
* Rename bio-formats-auto package to autogen. * Clean up IniParser a …

08/25/09:

16:56 Changeset [5417] by melissa
Added document describing pre-release testing procedures. Still needs …
12:07 Changeset [5416] by melissa
Added new methods for retrieving used files: * getSeriesUsedFiles() * …

08/24/09:

16:41 Changeset [5415] by curtis
Add dist-flow target to main build file.
16:40 Changeset [5414] by curtis
Add dist target for WiscScan Flow Cytometry application.
12:18 Changeset [5413] by melissa
* Better marker checking. * Added some debugging statements to aid in …
10:24 Changeset [5412] by melissa
Fixed an axis size calculation bug and slightly reduced initialization …
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