Activity
From 11/26/2011 to 12/25/2011
12/22/2011
- 11:51 AM Revision 6822 (metacat): Make sure the local id isn't null when we try to get the object from the local instance.
- 11:16 AM Revision 6821 (metacat): Simplify the error handling, and throw the exception once the CN is updated with the new status.
- 11:13 AM Revision 6820 (metacat): Set the replica status to failed (not invalidated) when we get exceptions trying to read the object bytes. Not much of a difference, but only the CN, in theory, is supposed to be able to set the invalidated status.
- 11:07 AM Revision 6819 (metacat): Set the replication status to invalidated when we have a localId, but getting the object bytes fails for any reason.
- 10:51 AM Revision 6818 (metacat): Only call super.create() if there's no localId found on the MN (ie a replica is there from an out of band process).
- 10:40 AM Revision 6817 (metacat): Get the object inputstream from the local metacat instance using MetacatHandler.get() rather than MN.getReplica() so we don't throw an InvalidToken exception when passing in a null Session. The D1Client object is never used for this local call.
- 09:24 AM Revision 6816 (metacat): interpret permissions as hierarchical
- https://redmine.dataone.org/issues/2150
12/21/2011
- 01:50 PM Revision 6815 (metacat): Use submitLoginFormIntoDivAndReload to replace submitLoginFormIntoDiv js function.
- 01:00 PM Revision 6814 (metacat): remove flag for independent system metadata replication -- these entries are replicated along with the data/metadata objects or via hazelcast when the actual object is not on the server.
- 12:33 PM Revision 6813 (metacat): update documentation to reflect changes to replication (client certificate)
- http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5516
- 10:52 AM Revision 6812 (metacat): include SSL settings for client certificate-based replication
12/20/2011
- 05:13 PM Revision 6811 (metacat): do not include the "v1" in the base url for the target MN
- 12:19 PM Revision 6810 (metacat): New D1 jars with a minor CNode.setReplicationStatus() bugfix.
- 11:29 AM Revision 6809 (metacat): The kar id will have version number.
- 11:25 AM Revision 6808 (metacat): process the _current_ revision, not the latest!
- use direct object/system metadata insertion for ORE maps.
- 11:21 AM Revision 6807 (metacat): allow other Metacat process (system metadata and ORE generation) to directly insert objects and system metadata without having to go through the MN/CN methods.
- 11:19 AM Revision 6806 (metacat): sort the docids so that "old" revisions are processed before newer ones
12/19/2011
- 01:07 PM Revision 6805 (metacat): only attempt to unlock a lock if it was created (in the finally block)
- 12:56 PM Revision 6804 (metacat): update tests to comply with these chenages:
- new jars with many changes -- including new CN methods: ping, describe, listChecksumAlgorithm. Removed MN.setAccessPo...
12/16/2011
- 04:24 PM Revision 6803 (metacat): new jars with many changes -- including new CN methods: ping, describe, listChecksumAlgorithm. Removed MN.setAccessPolicy. Refactored CN.setOwner() to CN.setRightsHolder().
- 12:21 PM Revision 6802 (metacat): refresh the SystemMetadata entry for EML and referenced data files when parsing EML access rules -- this ensures our in-memory system metadata map is up to date WRT the DB entries.
- 11:37 AM Revision 6801 (metacat): Using a branch name for the utilities project. This branch is a copy of the trunk and it uses the BSD license.
- We will move this branch to a tag soon.
- 11:00 AM Revision 6800 (metacat): add revision history to the generated ORE objects -- we use the revision history of the EML package as a basis because the each ORE revision mirrors the revision of the EML package.
- Add a placeholder for checking if an equivalent ORE map exists in the DataONE infrastructure - this will be a call to...
- 09:56 AM Revision 6799 (metacat): Update the parameter names expected for listObjects() to reflect the MN API changes in the architecture docs.
- 09:44 AM Revision 6798 (metacat): Change the query semantics such that we implement the MN.listObjects() where the lower datetime bound is inclusive (greater than or equal to" and the upper datetime bound in exclusive (less than). This allows easier paging in client applications.
- 09:42 AM Revision 6797 (metacat): for test to compile, provide BaseException param for setReplicationStatus. I used a NotAuthorized instance.
- 09:37 AM Revision 6796 (metacat): adjust after refactoring tests that use EML queries
- 07:42 AM Revision 6795 (metacat): In the call to MNReplication.replicate(), call back to CNReplication.setReplicationStatus() and set the status to failed when we get local exceptions, exceptions from the source MN when calling getReplica(). Send back an exception with a description when setting the status. Add a private setReplicationStatus() method to refactor these calls out.
- 07:36 AM Revision 6794 (metacat): Modify CNresourceHandler.setReplicationStatus() to use the new API signature, including the failure BaseException that is parsed out of the MMP as a file section. Log the exception message. Since this is an asynchronous call, ReplicationManager won't see a failed status, but the MNAuditTask eventually will.
- 07:32 AM Revision 6793 (metacat): Add collectReplicationStatus() to CNResourcHandler to return the BaseException or it's subclass, if any, provided in the the call to setReplicationStatus. The exception will be reported on the CN.
- 07:29 AM Revision 6792 (metacat): Change setReplicationStatus() to drop serialVersion and report the failure exception message in the CN log.
- 07:13 AM Revision 6791 (metacat): Add new D1 jars with update CNreplication API changes to SetReplicationStatus().
12/15/2011
- 05:32 PM Revision 6790 (metacat): query for deleted metadata when testing that replication communicated the deletion. to check data, we try to update the data object on the target node (which should fail)
- 05:11 PM Revision 6789 (metacat): add test for data locking
- 01:59 PM Revision 6788 (metacat): delete data and eml on the home Metacat and check that the change propagates to the target
- 01:29 PM Revision 6787 (metacat): set SystemMetadata.archived=true on MN.delete
- There is ongoing discussion on what the exact behavior should be here, but this mimics Metacat's delete-as-archive ac...
12/14/2011
12/13/2011
- 05:28 PM Revision 6785 (metacat): actually include the test in the suite
- http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5520
- 05:17 PM Revision 6784 (metacat): EML replication test with insert, update and set access
- http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5520
- 05:06 PM Revision 6783 (metacat): only create guid->docid mapping during metadata replication if it does not already exist
- http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5520
- 04:50 PM Revision 6782 (metacat): do not treat access change as an update -- it should not attempt to retrieve the contents of the object
- http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5520
- 04:36 PM Revision 6781 (metacat): Change the ecogrid tag to 1.2.2.RC5.
- 04:18 PM Revision 6780 (metacat): only create guid->docid mapping during data replication if it does not already exist
- http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5520
- 03:30 PM Revision 6779 (metacat): remove xml_acccess.docid reference (oops)
- http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5560
- 03:15 PM Revision 6778 (metacat): test update and set access during replication from A->B
- http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5520
- 12:22 PM Revision 6777 (metacat): updated D1 API -- removed Permission.REPLICATE and associated parameters
- 11:51 AM Revision 6776 (metacat): a minute for replication?
- 11:34 AM Revision 6775 (metacat): process system metadata before access rules (access control is now driven by GUID so the mapping needs to be there)
- 11:06 AM Revision 6774 (metacat): Change the key of query result cache. The key now has the real search value.
- 10:58 AM Revision 6773 (metacat): include SerialVersion in describe response
- https://redmine.dataone.org/issues/2135
NOTE: d1 jars should be replaced once all schema changes are finalized and th... - 09:17 AM Revision 6772 (metacat): comment out B->A test
- http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5520
12/12/2011
- 04:33 PM Revision 6771 (metacat): use correct URLs for replication/Metacat client
- 02:57 PM Revision 6770 (metacat): simple tests for 2-way data replication
- http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5520
- 01:22 PM Revision 6769 (metacat): ROLLBACK: check for non-public session in Metacat before showing the registry form
- http://bugzilla.ecoinformatics.org/process_bug.cgi
- 12:41 PM Revision 6768 (metacat): check for non-public session in Metacat before showing the registry form
- http://bugzilla.ecoinformatics.org/process_bug.cgi
- 11:26 AM Revision 6767 (metacat): redirect to the registry form following successful login - but allow an override in case we only want to render the success and stay there (ajax call from main sanparks page).
- 10:50 AM Revision 6766 (metacat): include 'archived' system metadata element in backing DB store
12/09/2011
- 04:25 PM Revision 6765 (metacat): include the logging level with configuring logger (with file appender) for replication and dataone
- http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5534
- 03:28 PM Revision 6764 (metacat): add ; to end of update command
- 03:11 PM Revision 6763 (metacat): add ; to end of update command
- 02:54 PM Revision 6762 (metacat): only update accessfileid for our new guid-based records
- 02:42 PM Revision 6761 (metacat): move latest postgres access upgrade statements to oracle script
- http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5560
- 02:35 PM Revision 6760 (metacat): include revision clause when updating the accessfileid on the xml_acccess table
- 12:12 PM Revision 6759 (metacat): remove docid column in favor of guid
- http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5560
- 10:20 AM Revision 6758 (metacat): include "esa" context in the data registry URL.
- http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5114
- 09:05 AM Revision 6757 (metacat): If a member node cannot be found in the node list matching the targetNodeSubject given in isNodeAuthorized(), throw a ServiceFailure exception.
- 08:04 AM Revision 6756 (metacat): Minor reformatting for readability.
12/08/2011
- 02:06 PM Revision 6755 (metacat): fix tests:
- -insert default objectFormatList from d1_common (includes schemaLocation now)
-calculate checksum for the system meta... - 01:51 PM Revision 6754 (metacat): update with latest d1_common/d1_lib (includes latest schema changes)
- 01:15 PM Revision 6753 (metacat): prepared statement toString() does not include quotes (') around the inserted values -- now the test reflects this.
- 01:12 PM Revision 6752 (metacat): only handle 100 (consecutive!) docId generations per millisecond, otherwise the generated docid part is bigger than Long.MAX_VALUE and Metacat cannot fully handle that.
- 11:27 AM Revision 6751 (metacat): Metacat now keeps track of permissions on a per-version basis -- the test reflects this change in behavior.
- http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5560
- 11:22 AM Revision 6750 (metacat): check previous revision when attempting to update access control with EML 2.0.x docs
- http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5560
- 10:17 AM Revision 6749 (metacat): remove old access rules for a data object when they are being updated by rules contained in an EML document. Now the OnlineDataAccessTest EML 2.1.0 tests pass.
- http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5560
12/07/2011
- 05:31 PM Revision 6748 (metacat): construct the proper previousDocId when checking for update permission
- 05:05 PM Revision 6747 (metacat): for now, look up SystemMetadata directly from the table otherwise we won't have the latest access information. Need to refresh the in-memory copy everytime we edit the access policy via Metacat (includes EML parser)
- 05:04 PM Revision 6746 (metacat): check previous revision for permissions to update (includes data described by EML)
- 05:02 PM Revision 6745 (metacat): use correct "rev" column in xml_revisions table
- 12:18 PM Revision 6744 (metacat): refactor Metacat access handling to be on a per-revision basis so that it more closely aligns with the DataONE approach
- http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5560
- 12:16 PM Revision 6743 (metacat): To avoid id generation conflicts happening at the same millisecond, append a 5 character random string to the end of the docid.
- 11:54 AM Revision 6742 (metacat): Remove header2, footer2 and left-nav2 files.
12/06/2011
- 04:31 PM Revision 6741 (metacat): change the default scheduler and workflow run engine urls.
- 03:03 PM Revision 6740 (metacat): retry: add node name in the correct order for predicate navigation
- http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5561
- 02:51 PM Revision 6739 (metacat): update test to reflect newer change:
- handle queries with predicates correctly.
when docids are used in the return field look up, we need to make sure they... - 02:50 PM Revision 6738 (metacat): add node name in the correct order for predicate navigation
- http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5561
12/05/2011
- 06:04 PM Revision 6737 (metacat): Use the absolute path for the change permission jsp page.
- 05:43 PM Revision 6736 (metacat): Add header style to distiguish header and normal row.
- 11:58 AM Revision 6735 (metacat): Make TPC link to use the same mechanism to open header and left panel.
12/02/2011
- 05:32 PM Revision 6734 (metacat): handle queries with predicates correctly.
- when docids are used in the return field look up, we need to make sure they are included in the values in the correct...
- 04:40 PM Revision 6733 (metacat): widen the third column.
- 11:27 AM Revision 6732 (metacat): close prepared statement only if not null
- http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5562
- 10:54 AM Revision 6731 (metacat): fixed a bug that using a wrong table name - acces_log.
- 10:53 AM Revision 6730 (metacat): fixed a bug that using acces_log table name.
- 07:37 AM Revision 6729 (metacat): Upgrade the hazelcast libraries to 1.9.4.4 from 1.9.3.4.
12/01/2011
- 03:38 PM Revision 6728 (metacat): Use accessblock in setaccess method. So user can grant/revoke public readable access.
- 01:30 PM Revision 6727 (metacat): ensure that the revision list is ordered ascending in case someone changes the sql query without realizing that it matters...
- 01:21 PM Revision 6726 (metacat): set the byte size of the ORE map before adding it
- 01:12 PM Revision 6725 (metacat): set/update the obsoletes/obsoletedBy fields in system metadata so that we always have a complete revision history for each object.
- Note: ORE maps do not have revision history...yet(?)
- 01:10 PM Revision 6724 (metacat): order the revision list, ascending.
- 11:57 AM Revision 6723 (metacat): removing unused class -- can't find a reference to it and it's causing compilation errors for me.
- 11:53 AM Revision 6722 (metacat): for "all" permission, return a list of READ, WRITE, CHANGE_PERMISSION
11/30/2011
- 05:31 PM Revision 6721 (metacat): generating ORE maps and creating/updating system metadata now. There are some Permission conversion issues to be worked out yet
- 05:25 PM Revision 6720 (metacat): look up access policy by guid or local id
- TODO: resolve the Metacat/EML "all" permission as it relates to DataONE (there is only READ, WRITE, CHANGE_PERMISSION...
- 05:23 PM Revision 6719 (metacat): make exception/error reporting clearer -- was getting lock messages when perhaps that was not the correct exception.
- 05:22 PM Revision 6718 (metacat): look up all docids is now a static method (ORE/SystemMetadata generation)
- 02:22 PM Revision 6717 (metacat): Add log statements for each call to ILock.unlock() for debugging.
11/29/2011
- 04:21 PM Revision 6716 (metacat): Add new test method to test getAccessControl.
- 04:20 PM Revision 6715 (metacat): Add eml test file which contains access part.
- 03:43 PM Revision 6714 (metacat): evict the HazelCast SystemMetadata entry if we update the access control rules via Metacat's legacy API, otherwise stale SystemMetadata stays in memory instead of being looked up from the backing table store.
- 03:41 PM Revision 6713 (metacat): optionally include ORE generation/insertion into Metacat when generating SystemMetadata
- https://redmine.dataone.org/issues/2056
- 02:15 PM Revision 6712 (metacat): optionally include ORE generation/insertion into Metacat when generating SystemMetadata
- https://redmine.dataone.org/issues/2056
- 01:44 PM Revision 6711 (metacat): Set a default HazelcastInstance after init() is called, and use this instance in getLock() to acquire a lock in the cluster.
- 01:41 PM Revision 6710 (metacat): no need to cast docInfo entries to String -- they are all strings
- 01:39 PM Revision 6709 (metacat): set revision history, the create/update dates and the owner/submitter (correctly)
- 01:05 PM Revision 6708 (metacat): use shared method for looking up "docInfo" map -- both in Metacat replication and in D1 system metadata generation
- 12:38 PM Revision 6707 (metacat): make default formatting a little bit easier to read
- 12:33 PM Revision 6706 (metacat): reformat code -- no changes
- 12:31 PM Revision 6705 (metacat): refactor SystemMetadata creation into separate class from the MetacatHandler -- this will be shared by upgrade code and normal metacat api.
- 11:00 AM Revision 6704 (metacat): include all document revisions when generating "missing" system metadata
- TODO: revision graph captured in obsoletes/obsoletedBy
- 10:10 AM Revision 6703 (metacat): When using ILock.lock(), get a lock on the string value of the Identifier, not the Identifier object itself. Hazelcast locking won't work otherwise.
- 08:55 AM Revision 6702 (metacat): Use the Hazelcast ILock mechanism to lock the system metadata identifier rather than using IMap.lock(pid).
11/28/2011
- 04:09 PM Revision 6701 (metacat): simplify SystemMetadata generation -- will be done during Metacat upgrade for D1 features/support.
- 03:53 PM Revision 6700 (metacat): clean up populator; use IOUtils library to do string<->stream conversions
- 03:37 PM Revision 6699 (metacat): utilities jar should not be committed to Metacat otherwise we will not retrieve the tagged version during Metacat build process.
- 03:04 PM Revision 6698 (metacat): catch all possible exceptions
- 02:44 PM Revision 6697 (metacat): act as a registered CN when calling CN methods -- create(), for example, is restricted to only be callable by a node of type CN.
- 02:22 PM Revision 6696 (metacat): Set sessionid for clientVeiwBean when it handle a request.
- Always set the order type to "allowFirst".
- 12:34 PM Revision 6695 (metacat): use IOUtils for testing read/write of XML strings. This goes along with the utilities project change to use the same apache commons IO library. Be sure to clean the utilities checkout in order to catch the right utilities svn tag when building!
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