Metacat

Check the change of the access rules on data objects only when we need to write access rules base on the access part of the eml document.

Add the identifier information in the exception when users try to change the access section but they don't have all permission.

Change the debug level from debug to trace.

Disable the feature of downloading external schemas.

Merge changes from the 2.6.0 release.

Sync access policy between MN -> CN when access rules are updated in EML 2.1+ for data object

check both previous and current data revisions when updating packages. https://projects.ecoinformatics.org/ecoinfo/issues/5647

move DocInfo parsing into utilities project so that it can be used by Morpho as well as Metacat.
http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5737

look up docid using mapped guid when checking permission on described data file
Addresses: http://support.nceas.ucsb.edu/rt/Ticket/Display.html?id=7490

no not record EML access rules that use the "denyFirst" permOrder.
https://redmine.dataone.org/issues/2614

do not create docid-guid mapping unless we are supposed to write access rules for the data to the dbase
https://redmine.dataone.org/issues/2572

add a parameter for optionally writing EML-embedded access control rules to the Metacat DB.
https://redmine.dataone.org/issues/2584
https://redmine.dataone.org/issues/2583

double check "ecogrid" data urls for valid docid.rev - namely integer rev numbers - when parsing EML and also generating system metadata when necessary. Log the errors as warnings.

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.

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

construct the proper previousDocId when checking for update permission

check previous revision for permissions to update (includes data described by EML)

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

use prepared statement place holder (?)

uses prepared statement instead of plain old statement.
deprecated the DBConnection.createStatement() method to discourage direct parameter value use in favor of parameter binding.
http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5527

http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5527

rollback the accessDAO changes - leaving well enough alone.

only include accessfileid when it is not toplevel

use access control dao for setting access in EML parser. send additional xml_access info in replication request

use detected XML encoding when reading/writing files
use UTF-8 as default when performing queries in the DB (assume DB is using UTF-8)
remove as many PrintWriters (uses system default character encoding only) as possible and construct OutputStreamWriters where explicit encoding can be given....

add support for EML 2.1.1

Merge 1.9.2 changes back into the trunk

Move the chunking of large test element data to centralized location in DBSAXNode.writeChildNodeToDB(). Beff up logging

Send appropriate message when trying to update a docid that was previously deleted.

fix spelling of word additional

Removed some old commented out code

Move access control source to it's own directory.

Change location of PropertyService to properties directory

Move document specific utilities to DocumentUtil from MetacatUtil. This makes it easier to define a layer between the core metacat services and the rest of the code.

Create database and shared directories for database management code and shared code respectively.

Don't worry about checking for user permissions when inserting a new document

Only check user permissions for online data if the data already exists.

Renamed MetaCatUtil to MetacatUtil

Use a distributionSection object to hold a distribution and it's access.

Changes to support EML 2.1.0. Mostly access control changes, but others as well.

convert revision number to a Long from a string when putting into database

Continue to qualify property names

Add sql debug statements

Merge 1.9 changes into Head

Removed the release ant token from all files in 'src'.

Replacing MetaCatUtil.debugMessage or MetaCatUtil.logMetacat call with logMetacat (private Logger object) call

Fixed bug which currentDocument maybe null.

Add date info.

Add code to handle deleted document replication.

Removing the code that calls the indexing thread. This call will be made from documentImpl.java once document insertion and update is finished.

Removed some unused code

Merging in changes made in branch 'dataaccess' by Jing Tao.

Made initial changes for accepting EML version 2.1.0 in Metacat