github.com/ome/ome-model commits | Ecosyste.ms: OpenCollective

Integrating specification and xsd-fu into build (Fix #4401)

df4b5c680c004e2a1e59aa6ba2533ad3d2c0032f authored almost 14 years ago

Re-arranging specification directory (Fix #3965)

3a59405251569455525a3692af27e7956e73c039 authored almost 14 years ago

Adding missing old 2003FC transform files

c9acdbba0988c24382db78ce68ede5dc2e927ffb authored almost 14 years ago

Clean up remaining source header issues.

89ff662ad3305c3a7935d47e3f102007a44cda11 authored almost 14 years ago

More source code link additions.

49bc313a7e9bf96b232152964409dc1865b7cecc authored almost 14 years ago

Update source code links to match new servers.

0a31e58b865f4dc97bae8e8bb4106e642f47c8e4 authored almost 14 years ago

Code changes to use the new VCS revision properties. (See #4267)

79da28e46424c10bc06d9ef9a83229586633ce9c authored almost 14 years ago

Creating transform file for 2007-06 to 2008-02

upgrade (close #3812 )

ece3e106deafe10f918125783fca65c4fd943c42 authored almost 14 years ago

Move over final changes from my SVN folder that did not end up in the Git version.

07aeedae1861d23d280b42ff8301106a72bda0bd authored almost 14 years ago

Ignore the 'test-output' directory generated by the unit tests.

37beefa8cb2a1ab0caa7b3692c89232213a2fad4 authored almost 14 years ago

Fix dependency issues identified by scan-deps.pl.

f3db96c6fea31c98f82439c8edc05e338eda61b0 authored almost 14 years ago

Fix up toplevel build, and add git ignore rules.

10a24c61471d512d07ce98bcfe58944c88a7bd17 authored almost 14 years ago

Adding upgrade transform to 2007-06. Process is slightly lossy. It has to remove Objective, ObjectiveRef, and OTF due to problems with the target schema. If possible use 2003-FC to 2008-09 instead as Objective structure is retained. See: OMERO trac #3811

9ab6685c7d5ba95d9c284c426be44754c933098a authored about 14 years ago

Comment about striping all SPW added.

0f38984c05b8fb7850b3830b249b7faac102c0f2 authored about 14 years ago

Reworked to choose to convert only the parts that we know will work, the first version tried to convert everthing but failed is lots of cases. This version preserves less of the model but should never produce a broken file if the input file was valid.

e7b0bc86490a54c29d3dfb5824bd15839e723a49 authored about 14 years ago

Remove unused color transform.

66dfb616e0993e5f2356d4eae25a9fd1b87391f1 authored about 14 years ago

Adding initial downgrade transform to 2008-02. Work is not yet complete. Process is currently VERY lossy. See: OMERO trac #3816

b3fdaaae3a54e720dc6d2f049108e4ed76d1ed45 authored about 14 years ago

Adding downgrade transform to 2003-FC. Process is VERY lossy. See: OMERO trac #3810

58c3eb70cb9037063ff9e31f886c4706772d2f18 authored about 14 years ago

Minor whitespace change as test (See #3698)

b97902f9ffb4772eaf63f679eb2c76190211a77e authored about 14 years ago

Fixing typo for ObjectiveAttributes

267223b02f3254916963a085b6eacbb5b3cd625a authored about 14 years ago

An example spim data file to be used with the wiki page outlining our spim solution.

490bf74fe4ecdc7846654f7af3d6e5916b5bf120 authored about 14 years ago

Editor project file update

3d026e9152870141701797596e8a3020e90f8430 authored about 14 years ago

Adding a second light source to sample to improve test of transform.

55637444dc4bb45635f78575270e1d90436ad69f authored about 14 years ago

Updated version numbers to 4.3-DEV.

90a0cc46abca7925d9622f4fedcb2fa9dc109e97 authored about 14 years ago

Restoring XML annotation write testing (See omero:#3269); re-run of code generation (ome-xml:r694).

fd2d573ba3258a5230f076b278ab7ed539209765 authored about 14 years ago

Proper XML annotation asXMLElement support using a DOM tree rather than text content (which results in escaped text). (See omero:#3269)

45990e4eff3809dc7f2d4a3a7ecc7975a63fca3f authored about 14 years ago

Fix build, making sure that the stylesheet is included in the ome-xml JAR.

86c7041fe9f3688a76a818ac8e7726735412eaa8 authored about 14 years ago

Proper XML annotation support (See omero:#3269); re-run of code generation. (ome-xml:r693)

5b8e00cbbb21601b025f06a60b1a5fabbb3cff02 authored about 14 years ago

Proper XML annotation support. (See omero:#3269)

b1bc86cfdff2eb191495e6bdfacb1282a0ad27f9 authored about 14 years ago

Merge in changes from Melissa/Chris to fix the updating of LaserMedium="Unknown"

68c48a672a0d2ccdea5a625aa298b6c94921f2d5 authored about 14 years ago

Change to the colour calculation used by the upgrade of unsigned to signed colours.

8a67c6c9ea11b1d4e24781f9fb4915673a196dbd authored about 14 years ago

Even though these are not real files there was a problem when the validator/updater/imported ran on them due to a missing xmlns attribute from the top level element. Attribute added.

202b0aa006598c2523dcccef33eb7f89da446e33 authored over 14 years ago

Fixing nominal magnifications to be inside a valid range (smallest value possible is 1)

7a02c69ec39409737a2c3b53885b78ec587a48a7 authored over 14 years ago

Tiff version updated using trunk version of Bio-Formats.

568186dfc96df6eda17af12ea234aa4ce9e1725a authored over 14 years ago

Resolving issues with Reference instances (with their referrer ID) ending up in the model object hash; includes test case. (Fixes #571)

a08b9190436d3ed3f3339db9e34d46c4bcd68923 authored over 14 years ago

I had incorrectly linked to the Pump not the Laser. Not corrected and Tiff version added.

0715b552dedb2d1c13a8dcb9319a2494c808ed06 authored over 14 years ago

Adding a LightSourceSettings element to the sample file.

a00c38b858ddf3573e0b438322b5d937862ea97d authored over 14 years ago

Tweaked component.runtime-cp for the ome-xml component and updated the default 'test' target to include 'component.runtime-cp' in the TestNG classpath. See #566.

cf58d81d60f5a4d3fdfc4390c636446a86301098 authored over 14 years ago

Project file update for xml editor

5d5e3e1ea257d617718824e80f7608a6fa598458 authored over 14 years ago

Adding an XMLAnnotation sample

687f47d13ac77635c236f1ff45d844768c3e2694 authored over 14 years ago

Edited to remove list nature of Type in Experimenter and MicrobeamManipulation.

a520af0bb432752b5b9b8c18b6c5b5a667ad2473 authored over 14 years ago

Moving files that are just examples of structure not real data.

293e88e99b85771ab3453dc2f7ad451922a02467 authored over 14 years ago

Moving files that are just examples of structure not real data.

035be9f297f3a2a3eb6af28100ce44563c045853 authored over 14 years ago

Adding a note to the files in the Samples/OmeFiles folder explaining the structure and filenames.

f2939440e2909fdc14c86950e4c3994da87d6197 authored over 14 years ago

Adding a warning note to the files in the Xml/Working folder.

f7ab778ee3c30a2d7eb2a4ac77cddc2c3707e374 authored over 14 years ago

Adding a warning note to the files in the Samples/OmeFiles/Working folder.

e4f9fdacc93eafef18edc633b1f325b5bb2480cd authored over 14 years ago

Moving the second batch of the 2008-09 files.

72a1835ecf59adb23f96fbef18310067d43ab789 authored over 14 years ago

Moving the first batch of the 2008-09 files.

1b081052a9e6c2633f509a089a1068bf90fd3b2f authored over 14 years ago

Adding a pointer to the sample OME files

c61337c8eed65b49a7f4498866e2b94a082416ae authored over 14 years ago

Update SVN and Trac paths.

e95b407c774e5fb5f0cfe6efc540112fd445deff authored over 14 years ago

* Updated MetadataConverter to properly handle LightSource attributes.

* Fixed a handful of small bugs in the SPW model tests.

050652c945aac76ab5d587db4a194641afd2410f authored over 14 years ago

Added light source type methods to metadata retrieve.

9e900666e76232878841cf43fdd698f911e34ebc authored over 14 years ago

More OME-XML validation fixes, see #520.

9214bc4b1c9485ef0e3647cc74ac2fe454424f5d authored over 14 years ago

Linking the ROI to the Image - new version of bio-formats used that maintains the ROIRef nodes on convertion.

7449862e4d42bfaba22a3de146766ec879ed990d authored over 14 years ago

Linking the ROI to the Image

ea430dab0a93e08640e98b9177ef215857732bcc authored over 14 years ago

Minor change

3458f912ded92e1ac51d8ba6ab3c2636129fb1f5 authored over 14 years ago

All file updated to have correct UUID attribute in the OME node.

1c9957eff0844c71fc3bb504463dde4c5ee80ae4 authored over 14 years ago

Batch of tiff versions to match ome-xml 2010-04 examples. Files have duplicate xml in all image comments of the tiff files because of the way they were created.

9a45f3efdc86544d54e3fcb6203d96bf8d73ded5 authored over 14 years ago

Batch of tiff versions to match ome-xml 2009-09 examples. Files have duplicate xml in all image comments of the tiff files because of the way they were created.

6f2c071b43b959e81c33e11c2a095435f52ea342 authored over 14 years ago

Batch of tiff versions to match ome-xml 2008-09 examples. Files have duplicate xml in all image comments of the tiff files because of the way they were created.

3318008b0be25b6cd77723bb9ebe7c2eca639b9d authored over 14 years ago

First try at version to match ome-xml example.

ea0af58d6539a07fd15983d9c4a6fabb3eec7237 authored over 14 years ago

An initial set of OME-TIFF files. These files will eventualy match the schema version of the folder they are in but at the moment all are 2010-06. They will be updated as I manualy edit them to there correct schema versions.

(Just checking them in now in case I make a mess of any and have to revert.)

01f5999816e9b7cf3ae4b6fb8ef1024d414632e7 authored over 14 years ago

Changes to make June 2010 Schema (2010-06) current

a9a35ba6a3d544da91bb057b7ec9ef97c3cc22b2 authored over 14 years ago

Changes to make June 2010 Schema (2010-06) current

7f2e217d4320cb1e6cd225b4757c6183d4eee5b3 authored over 14 years ago

Samples ome files for June 2010 Schema (2010-06)

1360d6fc13232b6c8a92699621cde7fcd9b9c217 authored over 14 years ago

Removing reference to Working folder.

e6556523d1fc70f15ece2acf8479cd185f92cbde authored over 14 years ago

Updated what's new and switch trunk component version numbers to 5.0-DEV.

24bda9f38a52683143131f9013b9df6338f2f790 authored over 14 years ago

Adding an OME v2010-06 ome.tiff file for each of the sample files. This have been created using Bio-Formats.

36756b98f0132b44a855dc0c1207ab9602faaf70 authored over 14 years ago

Compliant samples updates

1b876fc985f52d63459a85df2f2f02b6481216ab authored over 14 years ago

Temp output file added for testing

1757de4b57f414f3ec8a6b1a6f6c987678795112 authored over 14 years ago

Adding a full set of images to the SPW sample files

4b482be11590f9d7c111a8c3d912780eb8e50620 authored over 14 years ago

Changing name to reflect that this is a metadata only file

2920f9d1956104778551ab41e8960ec74630187e authored over 14 years ago

Move reference handling until after attribute population for FilterSet conversion.

50d1a2e62fa6848411ddb6d06f3ad4602cc0f1e2 authored over 14 years ago

Re-run of code generation. (ome-xml:r649)

1e8d2e6a7cbc7cd9a26dfe963a434cebc095a78b authored over 14 years ago

Ensure that we don't have infinite loops linking screens to plates and vice versa.

50a643a0bf2a3de1699b919a9f524d123e9b45ed authored over 14 years ago

Handle class cast exceptions in ROI shape transformation.

5e29dcf855ce478eded2542c8c9dda75f7c3ad3e authored over 14 years ago

Handle namespace prefixes on nodes during parsing of the DOM.

302098e5722fd54735697b57019c50d71f5d6968 authored over 14 years ago

Re-run of code generation; laser pumps can be any light source. (ome-xml:r648)

9c74d3c9e87f6232b473fd6c07f36edb96cf8b9f authored over 14 years ago

A Laser's pump can be any light source sub-class.

d7bca052cfbe4f5f3aebc864af0565319a3c8a15 authored over 14 years ago

Messed up logging by having an old version of the enum handler template, fixing.

2c4801898565601f7ecbc9be7eae6103cb609733 authored over 14 years ago

Re-run of code generation; DRY as a possible value for AIR immersion. (ome-xml:r647)

3950a434b7868a29e4c618fa59a16bfc338f5326 authored over 14 years ago

Handle DRY as an possible value for AIR immersion.

c7430ded477007cc8b9df5611f2ff85799e09e95 authored over 14 years ago

Re-run of code generation (ome-xml:r646), closes #512.

783a60ddb5763d0bee933a90050662c312a34292 authored over 14 years ago

Tweaked enum handler logging; see bio-formats:512.

b0ed2afa3e92a5f6a5fb4c4d1cd36ff55e458c1d authored over 14 years ago

Removed obsolete OME-XML model objects.

a9b7d2e3677722c5454ab6d3b7ffa70fdb256b25 authored over 14 years ago

Propagated the fix for invalid enumerations (because they are empty) to the other transforms.

1110f289963ff29efb55efec4d0bf34466f4ffa8 authored over 14 years ago

Support for TagAnnotation and TermAnnotation conversion.

085aa8b8d231ed39f3c922b175399724dcdfccd0 authored over 14 years ago

Added support for mask bin data.

10ebb44587f0863503da594af1b5b0f73bac2784 authored over 14 years ago

Applying latest changes to ome.xsd from working copy.

b165205b7507bbc55049fd281f1098fbae0069c4 authored over 14 years ago

Intigrating some fixes from Melissa for problems found during her testing.

e800820c003311d96ecbbee7e84728412295460c authored over 14 years ago

Fixed and uncommented most of the AnnotationRef conversion logic (and a few other *Ref conversions). Arc, Filament, Laser, LightEmittingDiode, and ListAnnotation.AnnotationRef are still not converted.

a435f9bc5c1eef1ed0105ac7fb9c79a4f579c9fd authored over 14 years ago

Update component version numbers from 4.1.1 to 4.2-DEV.

03735896fbdf7736748eb1b774948443d77b9d29 authored over 14 years ago

Fixed up enum handler template and resolved issues with UUID population in the OME-XML metadata implementation.

3d656115a8bfe8bbac35e2bb90156d24163877c5 authored over 14 years ago

Various fixes to OME-XML/OME-TIFF handling, including support for qualified namespaces in OME-TIFF files. Closes #492.

73bcbee7b4fa35ab5a9d48bf0f4b923ea28f0b05 authored over 14 years ago

Fixing enumeration handler logging when the requested value is null.

63c02be97aa06f510909a6ca331710cab9ce5e3e authored over 14 years ago

Updating schemas to use exclude-result-prefixes

be8b92066fd4629c48aac3f9864f08ae98c56acc authored over 14 years ago

Adding 2010-06 to the Schemas directory marked as 'future'

a00552140f9231e8cb29af34c18bb4afd0187567 authored over 14 years ago

Adding 2010-06 to the Schemas directory marked as 'future'

afb2a6076713d6fed9fbf6f832a1312b732f765c authored over 14 years ago

Re-run of code generation; superclass reference support. Added test case for ListAnnotations within the InOut test suite. (See ome-xml:r637)

9576eff3cc5476f98b9997d42bfa23418021b55a authored over 14 years ago

Support for superclass references.

9eb01046671aba1299c971078a775859843ec1c9 authored over 14 years ago