source: branches/cleanup @ 5947

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Diff Rev Age Author Log Message
(edit) @5947   10 years melissa Added a few more NetCDF tests.
(edit) @5946   10 years melissa Added a few more OME-XML tests.
(edit) @5945   10 years melissa Fixed packages for OME I/O tests and removed extra TestNG XML file.
(edit) @5944   10 years melissa * Moved OME I/O tests to ome-io component. * Added dependency check to …
(edit) @5943   10 years callan #464 Added LuraWave service * Stub in stubs component for …
(edit) @5942   10 years callan Stubs component; holds stubs of third party classes
(edit) @5941   10 years callan #464 Minimal test cases for POI, OME reader/writer, OME-XML MDB and NetCDF …
(edit) @5940   10 years callan Fixing imports in loci-plugins component
(edit) @5939   10 years callan #464 Re-organizing the JAIIIOService a bit, adding a test case to cover it
(edit) @5938   10 years callan #464 Various cleanup changes: * Normalized all service packages to …
(edit) @5937   10 years callan #464 Removing some usage of ReflectedUniverse where OMEReaderWriterService …
(edit) @5935   10 years callan #464 Implementation of OME reader/writer service (includes test cases)
(edit) @5931   10 years melissa Switched root test target to use overridden test targets in bio-formats …
(edit) @5930   10 years melissa Each component's 'test' target now depends on 'jar'.
(edit) @5929   10 years callan Fixed missing MDB test case
(edit) @5928   10 years callan Adding missing AbstractService
(edit) @5927   10 years callan Adding dependency check test cases to default test target
(edit) @5926   10 years callan #464 Addition of AbstractService and some more aggressive dependency …
(edit) @5925   10 years callan Updating Eclipse project settings for bio-formats and common components.
(edit) @5924   10 years callan Fixing Eclipse classpath.
(edit) @5921   10 years melissa Added service for reading JPEG-2000 data using JAI Image I/O. See #464.
(edit) @5920   10 years melissa Updated ImageViewer to use OME Notes service.
(edit) @5919   10 years melissa * Added service for MDB Tools. See #464. * Added documentation to …
(edit) @5918   10 years callan #464 NetCDFService implemented with relevant readers adjusted
(edit) @5917   10 years callan Fixing classpath and empty dependency package.
(edit) @5916   10 years callan Commiting missing ServiceException
(edit) @5915   10 years callan #464 Add ServiceException and switch OMEXMLService over to its use
(edit) @5913   10 years melissa Added LOCI POI service and fixed several bugs in service-related resource …
(edit) @5912   10 years melissa Added reader for Hamamatsu .his files. See #412.
(edit) @5909   10 years melissa Added reader for VG SAM .dti files. See #412.
(edit) @5908   10 years melissa Added reader for Unisoku files. See #412.
(edit) @5907   10 years melissa Added reader for Oxford Instruments' SPM files. See #412.
(edit) @5906   10 years melissa Added BD Pathway reader, courtesy of Shawn Garbett. Closes #389.
(edit) @5905   10 years melissa Re-added log4j to classpath.
(edit) @5904   10 years melissa Moved dependency version information to scan-deps.pl. Updated …
(edit) @5903   10 years melissa Added provider for ByteArrayHandles constructed from existing byte arrays …
(edit) @5902   10 years melissa Fixed compile errors introduced in r5898.
(edit) @5901   10 years melissa Fixed IMetadata template for bf-ice.
(edit) @5900   10 years callan Updating with MetadataAutgen as of r5899
(edit) @5899   10 years callan Fixing OMEXMLMetadata template.
(edit) @5898   10 years callan #464 OME-XML and OME Notes services "for real" * Moved ServiceFactory and …
(edit) @5897   10 years melissa * Fixed bug that caused ByteArrayHandles constructed from byte arrays to …
(edit) @5896   10 years melissa Upgraded many of the dependency JARs, and removed a few that are no longer …
(edit) @5894   10 years callan #464 A version of dependency injection for review
(edit) @5877   10 years callan #463 Cleanup of locations of inefficient legacy DataTools usage * With …
(edit) @5876   10 years callan #463 ByteArrayHandle changes to use direct buffer manipulations * Large …
(edit) @5875   10 years callan * Adding ByteBuffer read/write capabilities to the RA streams * Removed a …
(edit) @5874   10 years callan * Implemented NIOFileHandle ByteBuffer read/write operations. * Adjusted …
(edit) @5870   10 years melissa Added tests for reading to and writing from a ByteBuffer.
(edit) @5869   10 years melissa Added methods for reading to and writing from a ByteBuffer.
(edit) @5867   10 years melissa Ported r5857 to cleanup, with appropriate logging changes.
(edit) @5866   10 years callan #463 Clean up DataTools imports
(edit) @5865   10 years callan #463 Clean up now unused thread local.
(edit) @5864   10 years callan #463 DataTools initial cleanup; removing now unused read/write methods
(edit) @5863   10 years callan #463 Complete port of AWTiffTools away from DataTools
(edit) @5862   10 years callan #463 Ported TIFF saver to use RandomAccessOutputStream for writeIFDValue
(edit) @5861   10 years callan Add constructor for byte array handle to take an initial capacity.
(edit) @5860   10 years callan #463 DataTools removal for QTWriter
(edit) @5859   10 years melissa Fixed how NIOFileHandle and ByteArrayHandle read and write UTF strings.
(edit) @5858   10 years melissa * RandomAccessInputStream updates: removed checkEfficiency and replaced …
(edit) @5856   10 years callan #463 Further changes to allow for DataTools overhaul
(edit) @5855   10 years callan #459 Added capability for the output stream to wrap an existing handle
(edit) @5854   10 years callan Fixing bad AVIWriter conflict resolution against r5852.
(edit) @5853   10 years callan #436 Transitioned AVIWriter away from DataTools static method calls
(edit) @5852   10 years melissa * Changed XMLTools imports; fixes compile errors. * Changed 'status' …
(edit) @5851   10 years callan #436 Removed un-used and thread unsafe static XML factory
(edit) @5850   10 years callan #463 try/finally block sanity for closing files
(edit) @5849   10 years callan #463 Completed XMLTools review: * Fixed thread safety issues with static …
(edit) @5848   10 years melissa Finished removing references to Log and LogTools; all components should …
(edit) @5847   10 years callan * Switch to class parallelization * Remove useless TestNG Ant task …
(edit) @5846   10 years callan Try to avoid printing control characters and ASCII garbage in XML files.
(edit) @5845   10 years callan Adding log4j to the external Eclipse project classpath.
(edit) @5844   10 years callan Fixing Eclipse classpaths for slf4j.
(edit) @5843   10 years callan Test suite name that's easier for Hudson to digest
(edit) @5842   10 years melissa Removed loci.common.Log and loci.common.LogTools, in favor of SLF4J …
(edit) @5841   10 years callan Make parallel testing and testng.xml file re-use possible via Ant.
(edit) @5840   10 years callan Fixing test target classpath
(edit) @5839   10 years melissa Fixed return value when EOF is encountered.
(edit) @5838   10 years melissa Fixed TestNG JAR detection.
(edit) @5837   10 years callan Updating strings to for new TestNG JAR version.
(edit) @5836   10 years callan Using group attributes to specify test case run configurations in …
(edit) @5835   10 years callan Fixed remaining TODOs in NIOFileHandle and added test cases: * readLine() …
(edit) @5832   10 years melissa Fixed implementation of writeByte(int).
(edit) @5831   10 years callan * Write tests for all the data types * Fixed problems with double …
(edit) @5830   10 years melissa * Added LEO EM reader. See #412. * Updated FITS reader to allow the 'fts' …
(edit) @5829   10 years melissa Added Targa reader. See #412.
(edit) @5825   10 years callan * Tests for reads with byte arrays on buffer alignment * Fixed NIO file …
(edit) @5824   10 years melissa * Changed URLHandle to be read-only. * Added URLHandleTest to testng.xml.
(edit) @5823   10 years callan * Added byte array and byte sub array tests from Brian * Fixed issue with …
(edit) @5822   10 years callan Switched to usage of validateLength().
(edit) @5821   10 years callan * Fixing most NIOFileHandle write methods * Added test cases for writing …
(edit) @5819   10 years melissa * Fixed bug in NIOFileHandle.read(byte[], int, int) * Updated …
(edit) @5818   10 years melissa Corrected documentation and removed trailing whitespace.
(edit) @5817   10 years melissa Added root 'test' target and modified component 'test' targets to succeed …
(edit) @5816   10 years melissa Added Ant 'test' target for each component. This will compile everything …
(edit) @5815   10 years melissa * Fixed URLHandle to work with non-HTTP URLs. * Fixed URLHandle tests. …
(edit) @5814   10 years melissa Fixed a handful of bugs exposed by the I/O tests. URLHandle tests still …
(edit) @5813   10 years callan Re-architecting TestNG usage so that we can run a "suite" against any …
(edit) @5810   10 years callan Fixing Eclipse classpath for TestNG JAR
(edit) @5809   10 years callan * Proper end of file exception semantics * Buffers are no longer page …
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