Metacat

Add a method to get the type of the schema.

Add a new class represent a schema without a namespace.

Add a SAX parser to determine the namespace of a xml object. It only parses the root element, then stops.

Disable the feature of downloading external schemas.

If a format id in the system metadata is registered in the xml_catalog table, we will use the schema location for the format id to validate the xml instance;
otherwise, we will use our previous way.

Add a read timeout for the connection. See bug https://projects.ecoinformatics.org/ecoinfo/issues/6684:wq

allow utf-8 user first/last names to be used in responses for: login, logout, validatesession, getprincipals.

include user's fullName when validating a session. also, allow cookie session to be used if not passed in directly as a parameter

Append more information such as user name and group to the validating session response.

allow the XML namespace to be given in both double and single quotes. The regex pattern was only looking for xmlns values that were in double quotes. This was brought to light by LTER:
http://bugzilla.ecoinformatics.org/show_bug.cgi?id=5497

move HazelcastService to D1 package

Adding a HazelcastService for Metacat to enable Metacat as a Hazelcast cluster member in DataONE. This will require the hazelcast.xml configuration file used for the DataONE cluster to be on the Metacat classpath.

Removed ObjectFormatService in favor of CNCoreImpl

organize imports so that it is clearer what dependencies exist on the D1 jars

Merged in the D1_0_6_2_BRANCH changes that include the transition from ObjectFormat calls to ObjectFormatCache calls.

In order to sync up with DataONE 0.6.1 changes, I'm backing out ObjectFormatService changes temporarily in Metacat. Most functionality will be rolled back in using the DataONE 0.6.2 tag, but some methods in ObjectFormatService (such as getListFromDisk()) will be moved into d1_libclient_java.

Changes in the DataONE ObjectFormat class deprecate the convert() method, and we're now using Metacat's ObjectFormatService to look up object format attributes. The following changes replace ObjectFormat.convert() with ObjectFormatService.getFormat() in several classes....

This is the start of the ObjectFormatService, which manages the list of object formats registered within Metacat. This includes schema types, mime types, and other information related to a particular format. The service provides functionality for the DataONE MemberNode and CoordinatingNode components, with CoordinatingNodes providing the authoritative list of object formats. See https://redmine.dataone.org/issues/1378....

Add a static method to get base url base on a schema url.

A sax handler class can get included schema path.

add support for EML 2.1.1

fixed redmine task 864. Metacat will now download an http:// referenced schema when a reference is put in the xml_catalog table.

[merged from 1.9.3 branch] security fix: never unregister the "public" user session

refactored the sessionService to use a correct singleton initialization scheme. Added true authentication to ResourceHandler.

allow any nonquote characters in the schemaLocation attribute, otherwise the whole line is matched and this prevents schemaLocation from appearing anywhere but at the end of the line.

refactored XMLSchemaService to not have static methods. made the CrudServiceTest more robust.

removed system.outs

fixed schema location bug. the dataone schemas are now correclty found

Refactored schema service to call doRefresh() in constructor to eliminate code duplication.

Merge 1.9.2 changes back into the trunk

change unregister error message to be an info message

Add user name to SessionData object

Add session validation to metacat tpc and workflow scheduler. Fix sanparks skin session management so it always uses the logged in session id.

Add session Validation action and session timeout functionality.

Change location of PropertyService to properties directory

Persist skin properties across installations

Change MetaCatVersion to MetacatVersion

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

Implement stop method in services. Stop all services when shutting down metacat. This primarily keeps scheduler from hanging with open threads.

Added generic scheduler and workflow scheduling functionality.

Add archival read funtionality (jar/kar/war files)

Roll back replication user changes. Fix code that converts access levels to integer and to text.

Introduce replication user. Use the fileutil writer methods instead of writing directly.

Beef up exception handling from file utilities. Move UtilException to MetacatUtilException to eliminate conflict with similar exception in utility package.

Separate the concept of a backup file location and a metacat external directory location. These can be totally different.

Make sure and write the shortcut to the backup directory to a directory in the users home.

Allow for backup properties to be written to context based subdirectory of the external configuration directory. This allow multiple instances of metacat to be run side by side.

Handle sessions with null ids gracefully.

Do not throw exception when skin metadata file is missing. Instead, remove the skin from the available skins list, write an error message to the log and continue on. This was already done for the skins properties file.

Check for null session ID when touching session.

Do not back up password properties

Only configure skins that are correctly configured in the skins directory.

Check for existance of backup file location at startup time.

Create a propertyService.getTestInstance method to facilitate unit tests

Remove org configuration methods since they are not used. Get the backup configuration directories when doing a bypass. Implement the refresh method.

This service now holds a registry of active services. Refreshing of services must go through this class. Also holds some common values that are discovered via servlet context.

Implement refresh methods inherited from base class

Correct the pathing for the schema directories based on OS. Leave them in the database with linux style paths (forward slashes) since the values are also used to create urls.

add debug

Discover the external (backup) directory based on OS

catch and report missing skins configuration files.

Rename LDAPUtil to AuthUtil

Trim property values

Beef up the regex to find the document namespace

Get the file name from the system_id, handling cases where the id starts with http

Change the ServiceInterface into a base class called BaseService. All services extend BaseService.

Object to hold information about a single xml schema.

Add service to keep persistent information about xml schemas. This maintains a list of all registered schemas

Fix comments

Display the deb.runConfiguration property in debug

Add debug statements to the bypass config section

Reload backup properties after they are changed so it will show up on the configuration form when you go back to it.

Add geoserver section to configuration bypass module.

Move the DBAdaptor accessor into a DatabaseService class

Fix bug where skin configs don't read backup properties correctly for checkboxes.

Add comments. Added getPublicSession method

Add a "bypassed" state for confguration sections.

Add support for separate LDAP and organization level configurations

Add functionality to allow developer to bypass configuration utility

Create PropertyService using log directory instead of servlet context.

Fix backup file pathing issues. Modify checkAndSetProperty to get skin specific values from request.

implement getPropertiesByGroup() method

Backup properties should use addProperty, not setProperty

Merge 1.9 changes into Head