Metacat

merge from 2.6 branch: add support for EML 2.1.1 to DC crosswalking for OAI provider. https://projects.ecoinformatics.org/ecoinfo/issues/7030

merge from 2.6 branch: add support for EML 2.1.1 in OAI-PMH provider. https://projects.ecoinformatics.org/ecoinfo/issues/7009

Reviewed code for all uses of FileInputStream, checking to see if the method should be closing the stream, and if so, closing it in the method as well as in the finally clause to ensure we don't leak file descriptors.

use maven to manage most jar dependencies in Metacat.
Exceptions include: LSID, Datamamager (EML),

include WHERE in the sql where clause - encountered by SAEON's node admin, Alex Niehaus.

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

Bug 3835 - design and implement OAI-PMH compliant harvest subsystem
Minor bug fix to handle irregular Metacat docids containing two or more dot ('.') characters. In the LTER Metacat, the following docids (scope and identifier, excluding the revision value) have that characteristic:...

Bug 3835 - design and implement OAI-PMH compliant harvest subsystem
Return a 'badVerb' response when the 'verb' request parameter is missing from the request. Previously this generated a NullPointerException.

Bug fix for #5241: OAI-PMH: ListRecords verb returns content containing XML processing instructions.

return InputStream instead of Reader in the MetacatClient read() and readInlineData() methods. Can now handle binary data
http://bugzilla.ecoinformatics.org/show_bug.cgi?id=4432

Change location of PropertyService to properties directory

Bug 3835: Design and implement OAI-PMH compliant harvest subsystem: * Remove import of deleted class

Bug 3835: Design and implement OAI-PMH compliant harvest subsystem: * Add documentation files to the 'docs/dev/oaipmh' directory. * Delete two obsolete files. * Modify class description comment in MetacatRecordFactory.java

Bug 3835: Design and implement OAI-PMH compliant harvest subsystem. Develop harvester component of the OAI-PMH harvester/provider pair. * Terminate harvest if login failed. * Add runHarvester.sh shell script

Bug 3835: Design and implement OAI-PMH compliant harvest subsystem. Develop harvester component of the OAI-PMH harvester/provider pair.

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

Bug 3835: Design and implement OAI-PMH compliant harvest subsystem
Check to see whether metacat database has changed since last refresh date, and if it has, refresh catalog objects in memory.

Bug 3835: Design and implement OAI-PMH compliant harvest subsystem
1. Refactor the 'eml' metadataPrefix into a distinct metadataPrefix value (and corresponding crosswalk class) for each EML version:
eml-2.0.0, eml-2.0.1, eml-2.1.0. (In recent VTC discussion, we decided not to add support for the older 'beta' versions of EML 2.0.0.)...

Bug 3835: Design and implement OAI-PMH compliant harvest subsystem
1. When building the Metacat OAI-PMH catalog, modify the database query to search only for documents with public read access.
2. Change syntax used for identifiers in the repository to LSID format instead of using a URL to a specific repository....

Bug 3835: Design and implement OAI-PMH compliant harvest subsystem
Add support for request parameter "metadataPrefix=eml". This returns EML 2.1.0 records in an OAI-PMH format. EML 2.0.0 and 2.0.1 documents are first transformed to EML 2.1.0 using the eml201to210.xsl stylesheet that is packaged with the EML Utilities.

Begin development for Bug 3835: Design and implement OAI-PMH compliant harvest subsystem