source: branches/4.2 @ 7352

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Diff Rev Age Author Log Message
(edit) @7352   9 years melissa Restored getFirst(), getLast(), and getStep() as deprecated methods.
(edit) @7334   9 years melissa Updated what's new for today's release.
(edit) @7317   9 years melissa Make image names more easily identifiable in the original metadata.
(edit) @7316   9 years melissa Return a blank plane if a TIFF file is missing, just like we do with many …
(edit) @7287   9 years melissa Parse some more (undocumented) metadata from STK files, including channel …
(edit) @7280   9 years melissa Close readers left open by the openImage/openSubImage macro functions.
(edit) @7279   9 years melissa Merged Autoscale help text changes into 4.2: r7276, r7277, and r7278.
(edit) @7275   9 years melissa Updated metadata support documentation.
(edit) @7273   9 years melissa Updated version numbers to 4.2.2.
(edit) @7272   10 years melissa Merged r7256 into 4.2.
(edit) @7271   10 years melissa Merged r7255 and r7257 into 4.2.
(edit) @7270   10 years melissa Merged r7253 into 4.2.
(edit) @7269   10 years melissa Merged FV1000 reader changes into 4.2: r7249 and r7250.
(edit) @7268   10 years melissa Merged r7245 into 4.2.
(edit) @7267   10 years melissa Merged r7239 into 4.2.
(edit) @7266   10 years melissa Merged BufferedImage unpacking fixes into 4.2: r7236 and r7254.
(edit) @7265   10 years melissa Merged r7228 to 4.2.
(edit) @7264   10 years melissa Merged r7225 into 4.2.
(edit) @7263   10 years melissa Merged file handle fix and tests into 4.2: r7226, r7230, and r7231.
(edit) @7262   10 years melissa Merged ImageJ plugin changes into 4.2: r7210, r7238, and r7258.
(edit) @7261   10 years melissa Merged r7220 into 4.2.
(edit) @7260   10 years melissa * Skip over empty .lsm files instead of throwing an EOFException. * …
(edit) @7259   10 years melissa Improved stage position parsing.
(edit) @7252   10 years melissa Fixed dragging and dropping so that an "Open" dialog is not shown and …
(edit) @7251   10 years melissa Catch IOException when parsing ROIs, so that we can still read the file if …
(edit) @7248   10 years callan Merging r7247 from Trunk.
(edit) @7246   10 years melissa Fixed channel name population.
(edit) @7244   10 years melissa Fixed dimension adjustment for spool files.
(edit) @7243   10 years callan Merging r7240,r7241 and r7242 from Trunk.
(edit) @7237   10 years melissa Preserve physical pixel sizes when writing vanilla TIFF files.
(edit) @7235   10 years melissa Override get*BitLookupTable() methods so that files with a different LUT …
(edit) @7229   10 years melissa Prevent NPEs if detector metadata is missing.
(edit) @7227   10 years melissa Use the sum of all position values stored for a particular position …
(edit) @7224   10 years melissa Fixed pixel offset bug.
(edit) @7223   10 years melissa Prevent the 'open' option from being recorded twice. Closes #596. This …
(edit) @7222   10 years melissa Preserve custom color choices. Closes #586.
(edit) @7219   10 years melissa Merged r7179 into 4.2.
(edit) @7218   10 years melissa Fixed ImageViewer's default metadata population; closes #525.
(edit) @7211   10 years melissa Fixed FileFilter construction method so that it unwraps WriterWrappers. …
(edit) @7208   10 years melissa Backported r7207 to 4.2.
(edit) @7184   10 years melissa Updated version numbers to "4.2.1".
(edit) @7183   10 years melissa Fixed a couple of bugs in ImageConverter.
(edit) @7182   10 years melissa Updated what's new for today's release.
(edit) @7178   10 years melissa Don't correct the channel count in the case of RGB images.
(edit) @7175   10 years melissa Changed ome-io component back to using Java 1.5.
(edit) @7174   10 years melissa * Updated stylesheets to  ome-xml:r692. * Added test for Channel.Color.
(edit) @7158   10 years melissa Fixes for truncated .dv files from QA #2988 and #2989.
(edit) @7157   10 years melissa Remove any extra channels from OME-TIFF files. See  omero:#3250, QA #2973.
(edit) @7156   10 years melissa Hackish fix for potential IndexOutOfBoundsException; the real fix should …
(edit) @7155   10 years melissa Fix for overwriting TIFF planes.
(edit) @7154   10 years melissa Fixed conversion of LaserMedium attributes with value "Unknown".
(edit) @7153   10 years melissa Only populate LightPath references if the LSIDs are not null.
(edit) @7152   10 years melissa Allow .rec extension for MRC files. isThisType(RandomAccessInputStream) …
(edit) @7151   10 years melissa Updated showinf help text.
(edit) @7150   10 years melissa Updated C++ headers.
(edit) @7149   10 years melissa A bunch of little export fixes.
(edit) @7148   10 years melissa A few fixes for writing planes non-sequentially.
(edit) @7146   10 years melissa Added top-level compile target.
(edit) @7145   10 years melissa * Fixed multi-series OME-XML export. * Fixed multi-series OME-TIFF export. …
(edit) @7144   10 years melissa Finally fixed ND2 field index bug.
(edit) @7143   10 years melissa Fixed a handful of NPEs, AIOOBs, and leaking file handles.
(edit) @7142   10 years melissa Fixed a bug that prevented ROIs from being displayed.
(edit) @7141   10 years melissa * Backported r6227 to 4.1. * Fixed a subtle bug in calculating the pixel …
(edit) @7140   10 years melissa Fixed an NPE and a few plane indexing bugs.
(edit) @7137   10 years melissa Fixed timestamp indices, see  omero:#3121.
(edit) @7129   10 years melissa Fixed stage position indices.
(edit) @7128   10 years melissa Fixed a handful of Javadoc errors.
(edit) @7127   10 years melissa A few more fixes for small bugs exposed during testing.
(edit) @7126   10 years melissa Reversed usage of OMETiffReader's getMetadataStoreForDisplay() and …
(edit) @7125   10 years melissa Fixed a handful of little bugs exposed during testing.
(edit) @7124   10 years melissa Fixed scanline padding and various metadata parsing bugs.
(edit) @7123   10 years melissa Fixed autoscaling for sliced stacks.
(edit) @7122   10 years melissa Fixed TIFF file ordering problems.
(edit) @7106   10 years melissa Updated metadata support documentation.
(edit) @7104   10 years melissa Updated version numbers to "4.2.1-DEV".
(edit) @7103   10 years melissa Backported r7084 to 4.2.
(edit) @7102   10 years melissa Backported r7055 to 4.2.
(edit) @7101   10 years melissa Backported r7051 to 4.2.
(edit) @7100   10 years melissa Backported r7042 to 4.2.
(edit) @7099   10 years melissa Backported Zeiss LSM stage position changes to 4.2: r7040 and r7043.
(edit) @7098   10 years melissa Backported r7037 to 4.2.
(edit) @7097   10 years melissa Backported file stitching changes to 4.2: r7021, r7022, r7070, r7071, …
(edit) @7096   10 years melissa Backported native component changes to 4.2: r7014, r7035, r7036, r7049, …
(edit) @7095   10 years melissa Backported r7012 and r7013 to 4.2.
(edit) @7093   10 years melissa Various tweaks to file grouping logic, so that datasets can be read even …
(edit) @7092   10 years melissa Only populate Objective.NominalMagnification if the magnification is …
(edit) @7091   10 years melissa * Attempt to gracefully handle truncated Deltavision files. See QA #2892, …
(edit) @7090   10 years melissa Override get*LookupTable() so that LUTs are returned where appropriate. …
(edit) @7089   10 years melissa Skip over ROI files that do not exist, instead of throwing an exception.
(edit) @7085   10 years melissa Close unused file handles.
(edit) @7083   10 years melissa Added better type detection to the text reader, see  omero:#2740.
(edit) @7074   10 years melissa Parse stage positions from Fluoview/Andor TIFFs.
(edit) @7073   10 years melissa Populate physical sizes for all series.
(edit) @7072   10 years melissa Using bfconvert with an existing output file will now cause that output …
(edit) @7068   10 years melissa Finally finished fixing original metadata population, closes #564. We now …
(edit) @7067   10 years melissa Backported r7038 to 4.2.
(edit) @7066   10 years melissa Allow a different stage position for each plane.
(edit) @7063   10 years melissa Prevent Bio-Rad reader from attempting to initialize ._*.pic files. See …
(edit) @7057   10 years melissa Fixed PICT sub-image reading, see  omero:#3037.
(edit) @7056   10 years melissa Moved SizeT population, so that we do not attempt to populate it when …
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