source: trunk @ 3053

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Diff Rev Age Author Log Message
(edit) @3053   13 years curtis Fix color reset bug when adding transforms to a display. Temporary fix; …
(edit) @3052   13 years curtis Fix problem with OME-XML validation on Linux.
(edit) @3051   13 years curtis Add option to brute force past accessibility restrictions.
(edit) @3050   13 years curtis Better Javadoc.
(edit) @3049   13 years curtis Some improvements to reflected universe functionality: * direct variable …
(edit) @3048   13 years curtis More optimizations for ND2 initialization step.
(edit) @3047   13 years melissa Remove invalid metadata.
(edit) @3046   13 years melissa Removed some unused variables.
(edit) @3045   13 years melissa More efficient initialization of uncompressed files.
(edit) @3044   13 years curtis Return 1 for default pixel/domain multiplier.
(edit) @3043   13 years curtis Validate against OME-XML, not OMECA-XML.
(edit) @3042   13 years curtis * Use an internal ID generation mechanism that produces valid IDs. * Fix …
(edit) @3041   13 years curtis Add OME-XML validation to showinf.
(edit) @3040   13 years curtis Add a hack to filter out stupid clipboard stack traces on Mac OS X.
(edit) @3039   13 years melissa Better pixel type/channel detection.
(edit) @3038   13 years curtis Gracefully handle case where clipboard contents are unavailable (except on …
(edit) @3037   13 years melissa 32-bit uncompressed data is now interpreted as 4 channels, 8 bits per …
(edit) @3036   13 years melissa Fixed bug with multi-channel files that aren't RGB.
(edit) @3035   13 years melissa Remove garbage data from channel name.
(edit) @3034   13 years melissa Fixed bug with Fluoview files that have sizeY == 1.
(edit) @3033   13 years melissa Fixed to work with Java 1.4
(edit) @3032   13 years curtis * Clean up overlay GUI controls a little. * Fix bug with text field not …
(edit) @3023   13 years melissa Updated MetadataStore.setLogicalChannel to be more complete; updated …
(edit) @3022   13 years melissa Bugfixes.
(edit) @3021   13 years melissa Previous ome-java.jar didn't strip invalid characters out of the XML …
(edit) @3020   13 years melissa Fixed dimension order bug.
(edit) @3019   13 years melissa Populate original metadata if OME-XML is to be displayed.
(edit) @3018   13 years melissa Fixed NullPointerException.
(edit) @3017   13 years curtis Tweak Apache Axis2 hack to work better.
(edit) @3016   13 years curtis Fix problem with generated Javadocs not filling in the footer's year …
(edit) @3015   13 years curtis Add source code links to the Javadoc for every class. I automated the …
(edit) @3014   13 years curtis Remove old temporary import statements.
(edit) @3013   13 years melissa Added OME-TIFF writer. Also added API for writing multi-series files, …
(edit) @3012   13 years melissa Removed date parsing logic from ZVI - no matter how we do it, the date is …
(edit) @3011   13 years curtis Apply workaround for the Apache Axis2 bug in more places.
(edit) @3010   13 years curtis Workaround for bug in Apache Axis2.
(edit) @3009   13 years melissa Moved date conversion logic to DataTools; significant improvements to ZVI …
(edit) @3008   13 years curtis Update cache GUI component to respond to cache events. Now the GUI updates …
(edit) @3007   13 years melissa Make sure RGB flag gets propagated.
(edit) @3006   13 years curtis Tweaked OME2OME-CA.xslt to eliminate Java XSLT compiler warnings.
(edit) @3005   13 years melissa One last series name fix.
(edit) @3004   13 years curtis Some work on cache GUI component (not finished yet).
(edit) @3003   13 years curtis Progress on caching logic: * CacheEvent for reporting caching events * …
(edit) @3002   13 years curtis Fix NullPointerException with null objects.
(edit) @3001   13 years melissa Better folder support, including proper handling of nested folders.
(edit) @3000   13 years melissa Prepend folder name to series name.
(edit) @2999   13 years melissa Overrode isMetadataComplete implementation for formats supported by OMERO.
(edit) @2998   13 years melissa Added "boolean isMetadataComplete()" to IFormatReader API.
(edit) @2997   13 years melissa Fixed timestamps and added a fix for the change to the memory chunk …
(edit) @2996   13 years melissa Don't throw an exception if a parentless file is given to isThisType.
(edit) @2995   13 years melissa Don't assume dimension information is present.
(edit) @2994   13 years melissa Added support for 16-bit and < 8-bit data.
(edit) @2985   13 years melissa Scroll the window so that the next matching line is at the top. No longer …
(edit) @2984   13 years curtis Simply cache source interface a bit.
(edit) @2983   13 years curtis Remove mention of caching improvements until package is more stable.
(edit) @2982   13 years melissa Updated for next release.
(edit) @2981   13 years melissa Fixed to ignore audio tracks and all but the first video track.
(edit) @2980   13 years curtis Some work on the cache component; add "gui" command to cache tester.
(edit) @2979   13 years curtis Tweaks.
(edit) @2978   13 years melissa Reset template before opening a file.
(edit) @2977   13 years curtis Whitespace.
(edit) @2976   13 years curtis Whitespace.
(edit) @2975   13 years curtis Use LogTools instead of System.out.
(edit) @2974   13 years curtis Use conservative default caching range.
(edit) @2973   13 years curtis Woo, cache logic appears to be working.
(edit) @2972   13 years melissa For now, don't stitch files.
(edit) @2971   13 years melissa Fixed how non-standard pixel types are handled (no longer throws an …
(edit) @2970   13 years melissa * Added missing setLogicalChannel calls. * Added new metadata categories …
(edit) @2969   13 years curtis A bit of cleanup.
(edit) @2968   13 years curtis Rewrite cache strategy logic.
(edit) @2967   13 years curtis Temporarily comment out some obsolete logic.
(edit) @2966   13 years curtis Eliminate superfluous array allocation from raster/position methods.
(edit) @2965   13 years melissa - Changed default background color, so that all font colors are visible. - …
(edit) @2964   13 years melissa * Removed unnecessary imports from TiffReader. * Cleaned up ZVI reader …
(edit) @2963   13 years curtis Fix compile errors.
(edit) @2962   13 years curtis Tweak.
(edit) @2961   13 years curtis A bunch of work on the caching logic. Still broken though.
(edit) @2960   13 years melissa Converted HighInteger/LowInteger fields to real timestamp.
(edit) @2959   13 years melissa Fixed a couple of NullPointerExceptions, and several bugs in the editor …
(edit) @2958   13 years melissa Allow templates to specify the node number for each node in a map, e.g. if …
(edit) @2957   13 years melissa Added setOriginalMetadataPopulated(boolean) and …
(edit) @2956   13 years melissa Improved population logic.
(edit) @2955   13 years melissa Added searchable text window.
(edit) @2954   13 years curtis * Do not reload preview thumbnail if another used file is selected * …
(edit) @2953   13 years melissa Updated to reflect new cache package structure.
(edit) @2952   13 years melissa Added main method to Cache; fixed package names in sources.
(edit) @2951   13 years melissa Allow sources to be constructed with either a filename or a reader; fixed …
(edit) @2950   13 years curtis No need for package.html, as there are no Java source files in this …
(edit) @2949   13 years curtis Move text documents into doc folder.
(edit) @2948   13 years curtis With only a couple of strategies and sources, it is fine for everything to …
(edit) @2947   13 years curtis Eliminate superfluous Utils class.
(edit) @2946   13 years curtis Update to latest OME-CA2OME.xslt with PixelSizeT -> TimeIncrement bugfix.
(edit) @2945   13 years melissa OME plugin now works with macros.
(edit) @2944   13 years curtis Minor tweaks.
(edit) @2943   13 years melissa Added OME-TIFF reader; removed OME-TIFF logic from TiffReader.
(edit) @2942   13 years melissa Ignore class files.
(edit) @2941   13 years melissa Fixed how CustomImage works with ImageJ < 1.38n.
(edit) @2940   13 years melissa Added TCS reader - turns out we have a multi-plane TCS TIFF after all.
(edit) @2939   13 years melissa Added Visitech and Leica TCS TIFF.
(edit) @2938   13 years melissa Moved all documentation to 'doc' directory.
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