Timeline


and

11/03/06:

17:43 Changeset [1748] by curtis
Some comments outlining what needs to be done for AxisGuesser.
15:21 Changeset [1747] by curtis
Some work on axis guessing logic for improved file stitcher: * basic …
11:39 Changeset [1746] by sorber
Switch from visad.ReflectedUniverse to loci.formats.ReflectedUniverse.
09:32 Changeset [1745] by curtis
Update what's new to v3.31a.
09:30 Changeset [1744] by curtis
Tweak version detection.
09:23 Changeset [1743] by curtis
Only use invokeAndWait to construct JFileChooser if the current thread is …

11/02/06:

17:12 Changeset [1742] by curtis
Fix bug in dist-slim target.
16:18 Changeset [1741] by curtis
Add option to toggle individual channels on and off.
14:01 Changeset [1740] by curtis
Update what's new list for 2006 Nov 2 release.
13:38 Changeset [1739] by curtis
Fix recursion error in read method.
13:16 Changeset [1738] by melissa
- Removed option to colorize channels. - Removed globalOffset logic from …
13:02 Changeset [1737] by melissa
Fixed endianness flag in OIB reader.
12:56 Changeset [1736] by curtis
Use loci.plugins.IJLauncher, not ij.ImageJ directly.
12:56 Changeset [1735] by curtis
Readd IJLauncher (will be needed to handle processing of server address, …
12:27 Changeset [1734] by curtis
Bundle everything into ij-jws.jar; add more clean targets.
11:56 Changeset [1733] by melissa
Tweaked strip offset calculation in Zeiss LSM reader.
11:55 Changeset [1732] by curtis
Propagate visbio.version variable to source code properly.
11:25 Changeset [1731] by melissa
Added option to colorize channels (doesn't require any more memory).
11:06 Changeset [1730] by curtis
Add build target for ij-jws.jar (ImageJ Java Web Start bundle); no more …
10:39 Changeset [1729] by curtis
Move some ImageJ JWS logic into loci/plugins; add handling of IJ_Props.txt …
10:32 Changeset [1728] by curtis
Update ImageJ JAR file.
09:30 Changeset [1727] by curtis
Cleaner reporting when VisBio is an "internal build."
09:18 Changeset [1726] by curtis
Fix bugs in dist-visbio targets.
08:08 Changeset [1725] by curtis
Update what's new list to release v3.31.

11/01/06:

16:46 Changeset [1724] by sorber
Slight change to freeform editing in FreeformTool:mouseDrag
16:12 Changeset [1723] by curtis
Use HTTP to call OMEIS instead of spawning local processes.
15:11 Changeset [1722] by curtis
Add abridged 2006 Sep 6 release notes to "what's new" file.
14:55 Changeset [1721] by curtis
Fix bug with initial buffer for small files.
14:25 Changeset [1720] by curtis
Instead of RandomAccessArray extending RandomAccessFile, and the ugly …
11:12 Changeset [1719] by melissa
Changed LIFReader to use RandomAccessStream (instead of RandomAccessFile).
11:02 Changeset [1718] by melissa
* Fixed how ChannelMerger and ChannelSeparator deal with 4 channels. * …

10/31/06:

19:09 Changeset [1717] by sorber
Improvements to editing freeform overlays (OverlayObject.java, …
15:30 Changeset [1716] by curtis
Fix several issues with isThisType logic in ImarisReader: * No need to …
15:01 Changeset [1715] by curtis
Fix NullPointerException if channel minimum or maximum isn't populated …
14:53 Changeset [1714] by curtis
Javadoc tweak.
13:31 Changeset [1713] by curtis
Update what's new list for Oct 31 release.
08:24 Changeset [1712] by melissa
Added support for Imaris 5 files; tweaked isThisType in ImarisReader.
07:54 Changeset [1711] by melissa
Added support for RGB ICS images - all ICS files should work now.

10/30/06:

16:53 Changeset [1710] by curtis
Example utility for editing an OME-XML Image name attribute.
16:32 Changeset [1709] by curtis
Add additional static getIndex signature, similar to new getZCTCoords …
16:23 Changeset [1708] by curtis
Example utility for converting third-party formats into OME-TIFF.
14:42 Changeset [1707] by curtis
Rename EditOMETIFF to EditTiff.
14:06 Changeset [1706] by curtis
Remove Bio-Formats/OME integration from todo list.
13:48 Changeset [1705] by curtis
Javadoc tweak.
13:45 Changeset [1704] by curtis
Fix bug where using IDS filename for the id caused initFile to be called …
13:14 Changeset [1703] by curtis
Update what's new file for Oct 30 minor release.
12:57 Changeset [1702] by curtis
Add dev-clean and dev-compile targets for compiling and removing *.class …
12:54 Changeset [1701] by curtis
Ignore *.class.
12:53 Changeset [1700] by curtis
No more need for this class, since it has been merged with ImageJ's …
12:36 Changeset [1699] by curtis
Construct file chooser in Swing worker thread, to avoid deadlocks.
12:14 Changeset [1698] by melissa
Added support for tiled TIFFs.
11:42 Changeset [1697] by melissa
Fixed some ICS bugs.
09:51 Changeset [1696] by melissa
Fixed exception in ICSReader.

10/27/06:

14:26 Changeset [1695] by curtis
Tweak.
13:43 Changeset [1694] by curtis
Add note indicating date of first official release.
13:42 Changeset [1693] by curtis
Add the last couple of release notes to the "What's new" document.
13:41 Changeset [1692] by curtis
Comment out Repository injection.
13:31 Changeset [1691] by sorber
loci.visbio.util.MathUtil I split getDistance(double[] a, double[] b, …
12:39 Changeset [1690] by curtis
Add "tools" task for building a JAR file containing many LOCI tools plus …
10:45 Changeset [1689] by melissa
Added "whats-new.txt".
07:53 Changeset [1688] by melissa
Temporarily commented out Nikon compression logic.

10/26/06:

15:52 Changeset [1687] by curtis
Progress on OMEIS/Bio-Formats command line utility.
14:12 Changeset [1686] by melissa
Construct a separate legacy ZVI reader for each normal reader.
14:07 Changeset [1685] by curtis
No need to override mapId for QTReader.
14:02 Changeset [1684] by curtis
Make mapIds work when delegating to legacy readers.
13:11 Changeset [1683] by melissa
Make sure native QT and ZVI readers propagate their state to the legacy …

10/25/06:

14:46 Changeset [1682] by curtis
Flesh out the getMappedId note a little bit.
14:41 Changeset [1681] by curtis
Fix bug when reading OME-XML images with height > width.
12:21 Changeset [1680] by melissa
Fixed endianness bug in OMEXMLReader - the endianness flag was being reset …
08:44 Changeset [1679] by melissa
Added getMappedId(String) to "getting started" guide.

10/24/06:

16:26 Changeset [1678] by curtis
Use mapping API for OmeisImporter.importIds.
16:13 Changeset [1677] by curtis
Use new mapId method for testIds.
15:49 Changeset [1676] by curtis
Move ImageReader-specific file format detection logic into …
15:46 Changeset [1675] by curtis
Tweak isThisType and javadoc.
15:46 Changeset [1674] by curtis
Tweak javadoc.
15:12 Changeset [1673] by curtis
1) Use "getMappedId(id)" instead of "id" everywhere the file is …
14:39 Changeset [1672] by curtis
Call mapped id getter 'getMappedId' instead of 'getActualFilename'; use …
14:27 Changeset [1671] by curtis
1) Add IFormatHandler.mapId(String, String) and …
13:55 Changeset [1670] by curtis
Tweak isThisType(String, boolean) documentation.
13:34 Changeset [1669] by curtis
Fix documentation typo.
13:04 Changeset [1668] by curtis
Progress on Bio-Formats/OMEIS command line utility.
08:39 Changeset [1667] by curtis
Script for launching OmeisImporter from the command line.
08:30 Changeset [1666] by melissa
Fixed FormatReader.testRead to handle files that begin with "-".

10/23/06:

17:41 Changeset [1665] by curtis
Begin work on command line OME importer that works in conjunction with …
15:49 Changeset [1664] by curtis
Remove illegal @author tags in methods.
15:48 Changeset [1663] by curtis
Fix documentation.

10/20/06:

18:01 Changeset [1662] by curtis
Rename decode method to more descriptive base64Decode.
17:35 Changeset [1661] by curtis
Bugfixes.
16:11 Changeset [1660] by curtis
Fix file pattern detection; report whether OME-TIFF comment was saved.
16:01 Changeset [1659] by curtis
No more need to specify number of time points (but still allowed).
08:48 Changeset [1658] by melissa
- Added a 'close' flag to most methods in OME upload API; this allows the …

10/19/06:

15:38 Changeset [1657] by curtis
Use setVisible(true) instead of deprecated show().
14:45 Changeset [1656] by curtis
Slim Plotter now uses Bio-Formats library externally.
14:44 Changeset [1655] by curtis
Minor tweaks.
14:30 Changeset [1654] by curtis
Use Bio-Formats (SDTReader) to read header information. Add Export button …
14:23 Changeset [1653] by curtis
A few minor edits.
14:23 Changeset [1652] by curtis
Change "-ignore" flag to "-nocolors".
13:57 Changeset [1651] by curtis
Make all fields public.
13:31 Changeset [1650] by melissa
Tweaked OME upload API.
12:05 Changeset [1649] by melissa
Fixed SizeC detection in OIFReader.
08:08 Changeset [1648] by melissa
Removed some unnecessary variables from AliconaReader.
08:01 Changeset [1647] by melissa
Added "getting started" guide that describes the basics of writing a new …
07:58 Changeset [1646] by melissa
Added draft of new OME uploader API.
07:51 Changeset [1645] by melissa
- Added support for Alicona AL3D - Added option to ignore color tables …

10/18/06:

10:27 Changeset [1644] by curtis
Use loci.formats.in package instead of loci.formats for readers.
10:25 Changeset [1643] by curtis
Rename script to something that doesn't conflict with GNU/Linux so much.
10:03 Changeset [1642] by melissa
Better dimension detection for OIF files.
09:51 Changeset [1641] by melissa
Fixed plane ordering in OIBReader.
08:14 Changeset [1640] by melissa
Better metadata parsing in LIFReader.

10/17/06:

15:27 Changeset [1639] by curtis
Remove IFormatReader.getImages(String) method; tweak documentation.
14:25 Changeset [1638] by curtis
Add -nometa flag for suppressing output of non-core metadata.
14:05 Changeset [1637] by curtis
Change file stitcher prefix detection to be case insensitive.
14:04 Changeset [1636] by curtis
Style fixes.

10/16/06:

16:10 Changeset [1635] by curtis
First cut at bugfix for FileStitcher when wrapping another ReaderWrapper …
12:29 Changeset [1634] by chris
Browser: 1) CacheManager Options gui in the options window now completely …

10/13/06:

17:46 Changeset [1633] by chris
Browser: 1) Added gui for cache managing controls. Not yet functional.
08:52 Changeset [1632] by melissa
Changed series chooser dialog in ImageJ importer.

10/12/06:

16:20 Changeset [1631] by chris
Browser: 1) all RECT_MODE type cachemanaging schemes implemented. this …
15:27 Changeset [1630] by curtis
No need for canDoStacks to throw IOException.
15:19 Changeset [1629] by curtis
Style fixes.
15:01 Changeset [1628] by curtis
Add support for removing consecutive blank lines.
14:45 Changeset [1627] by curtis
Include root java folder in classpath.
14:02 Changeset [1626] by curtis
Better style check script.
13:51 Changeset [1625] by curtis
Ignore .class files.
13:50 Changeset [1624] by curtis
Include jar-checks in jars target.
13:50 Changeset [1623] by curtis
Add About dialog for loci.checks package.
13:44 Changeset [1622] by curtis
Better docs target; fix javadoc warnings.
13:00 Changeset [1621] by melissa
Fixed memory issue in GatanReader.
12:57 Changeset [1620] by melissa
Fixed some lingering memory leaks.
12:51 Changeset [1619] by curtis
Add package for LOCI custom Checkstyle checks.
12:51 Changeset [1618] by curtis
Documentation tweak.
12:50 Changeset [1617] by curtis
Tweak comment.
12:08 Changeset [1616] by melissa
- Make sure ImageJ always applies custom calibrations, if available. - …
10:37 Changeset [1615] by curtis
Style fixes.
10:33 Changeset [1614] by curtis
Fix author tags.
10:33 Changeset [1613] by curtis
Add import order check.
10:21 Changeset [1612] by curtis
Whitespace.
10:00 Changeset [1611] by curtis
Implement getCompressionTypes and setCompression for ImageWriter.

10/11/06:

19:15 Changeset [1610] by melissa
Fixed most pixel type mismatches.
15:08 Changeset [1609] by curtis
Add IFormatWriter interface, similar to IFormatReader. Clean up and …
13:33 Changeset [1608] by sorber
You can now redraw interior segments of a freeform overlay, but only …
11:59 Changeset [1607] by melissa
Fixed some stuff in ZVI readers. Also fixed a major bug in patched …
10:30 Changeset [1606] by curtis
Add pixel type reporting to image viewer status bar.
10:29 Changeset [1605] by curtis
Add pixel type mismatch checking to testRead.
10:03 Changeset [1604] by curtis
Fix pixel type.
10:03 Changeset [1603] by curtis
Whitespace.

10/10/06:

16:22 Changeset [1602] by curtis
Rely on external jars for MovieStitcher.jar, instead of bundling …
16:21 Changeset [1601] by curtis
Allow any format of input movies (instead of just QuickTime and TIFF).
15:27 Changeset [1600] by curtis
Fix MovieStitcher targets; eliminate some hardcoding from build.xml.
15:23 Changeset [1599] by curtis
Tweak application description.
14:55 Changeset [1598] by curtis
Add FileStitcher constructor signature allowing ids to be patterns rather …
14:27 Changeset [1597] by curtis
Eliminate jikes warning.
12:59 Changeset [1596] by melissa
Fixed reported issue with opening ZVI files in ImageJ. This includes …
12:24 Changeset [1595] by curtis
Update build rules to reflect loci.apps.qt -> loci.apps.stitcher change.
12:17 Changeset [1594] by curtis
Rename QT Converter to Movie Stitcher to reflect an increase in …
12:16 Changeset [1593] by curtis
Move loci.apps.qt package to loci.apps.stitcher in anticipation of name …

10/09/06:

16:53 Changeset [1592] by sorber
A variety of changes to OverlayObject, OverlayFreeform, & FreeformTool to …
15:04 Changeset [1591] by curtis
Add support for fill option for freeform lines.
09:35 Changeset [1590] by curtis
Remove debugging statement.
09:21 Changeset [1589] by melissa
- Close files in LeicaReader.openBytes and LeicaReader.openImage - …

10/06/06:

15:53 Changeset [1588] by curtis
Fix ClassCastException in FileStitcher.
12:07 Changeset [1587] by curtis
Latest ImageJ/HandleExtraFileTypes/Bio-Formats integration from Wayne.
08:33 Changeset [1586] by melissa
Fixed ImageJ importer to work with files in data/fv1000/marc.
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