Metacat

Reformatted source for readability and conformance.

Excluded the update of the xml_index table in insert,update, and delete if the usexmlindex option is set to false.

Reformatted DBQuery.java for readability and consistency.

Changed printAttributeQuery() to no longer depend on the xml_index table. Now, if useXMLIndex is false, the method will use a recursive query on xml_nodes to match paths instead of using xml_index.

Some refactoring of the printExtendedSQL()
methods to eliminate redundancy in the code and
to provide more readable documentation.

Moved decision about whether to use xml_index for
query to the metacat.properties as "usexmlindex". Default
is now false. Still have some refactoring to do to remove a
few more uses of the xml_index table.

Created new printExtendedSQL function that can get the extended
return fields using only xml_nodes and not xml_index. One
step closer to eliminating the dependence ofn xml_index.

Created test class QuerySpecificationTest and started process of removing the xml_index from the QuerySpecification code. Reformatted some classes for readability.

Removed the "getdataguide" action as it was always experimental and is no longer used in metacat or morpho.

removed the 3 versions of printPackageSQL which are no longer used by metacat. This eliminates some dependency on xml_index.

Implement Harvester Registration Servlet

Additional scheduling logic

Changes to Harvester properties

Changes to log entries

Made changes in these three files so that getPrincipal returns back more details about users and groups. Users now contain userDN, user Name and user Email. Groups now contain Group name and Group description. So some function calls which returned single string array earlier now returns multiple string arrays. AuthSession.java called one of these functions - so accordingly changes were made to fix that part of the code.

Fixed the bug for sessionid storing, revision couldn't be zero and Ldap DN is case sensitive.

Replaced Hash table with Vector of Vector datastructure in getting <param> from Query. This was done so that the results are represented in same order as they appeared in the document.

Fixed bug that version could not be zero in replication.

Additional Harvester development

Additional development of Harvester implementation

Harvester source files

Restoring AuthLdap to previous search filter. Determined that the problem was
a missing o: attribute in the UCNRS LDAP directory. Adding it in makes the old
method work. The change I had made caused some confusion about authentication
because using just uid for a filter caused too many return dn's, and it was just...

Modified LDAP authentication to support a lookup for the NRS system. If
the auth on the provided string fails as a DN, try to look up a new
DN based on the UID. If we get a match, use that DN for auth and see
if that works. This allows us to use a referral within the...

Enabled stylesheet parameters to be passed through metacat even when the
'query' function is called. Previously, query would interpret all
parameters except a few hardcoded ones to be pathexpressions that should be
built into a squery. Now, metacat.properties contains a new configuration...

Moved the metacat.properties file from the jar file to now be located in
the tomcat context directory in WEB-INF. Now the metacat configuration is
editable in place. This change depends on a new Options.java class in the
utilities module, so be sure you do a "clean" build in metacat so that you...

Improvements to Harvester single file upload servlets

This is the merge from the branch WEB_UI_REDESIGN_BRANCH back into the head.
The only files that have been removed are those in lib/style/eml2; other files
that have been cvs removed (only from lib/ and lib/style) have been re-added
elsewhere (i.e. moved from one directory to another)....

Remove unneeded file Upload999.java

If the sessionid is null and user will be treated as public.

Get rid of doctype declare in transfer.

Set system id for transforming.

Modified a method and can be reused.

If db pool size is maxium and no connection is free. The checkout will be wait.

Add a checking for xml_nodes insert finished, then start build index table.

Remove UPPER function for >, < operator.

Add a new search mode not-contains.

Modified a debug Message.

Add a new method to find document from queryspecification.

Revise code so it can be called directly.

Revied the class.

New class will be used in metacat ecogrid impl.

• empty log message ***

Updated more tests on session reuse. Made the http calls set the sessionid
explicitly rather than relying on cookies being passed around statically.
Still need to modify HttpMessage to get rid of the static cookie.

New versions of the Metacat client API that allow access to the sessionId
so that a session can be reused over several different instances.

Fixed the sessionId handling code to now properly return the sessionId
in the login response message. Updated junit tests to test this issue.

Modified metacat to now provide the session identifier in the response
xml message when a login is called. This has not been fully tested.
I removed the HttpMessage class from metacat in favor of using the version
of that class that is found in the utilities module. This may cause some...

Fixed a bug for importing package

Fixed the bug that if path query without xml declaration will cause a non well-formed result doc.

A sample application program to call metacat string service.

Fixed some bugs in this file.

Implementation for the interface.

Add a new client interface with string type for web service.

in toxml method, add new code to handle dtd.

Add a new constructor to hanlde DTD node.

Add code to handle public id and system id.

Implement logout method.

Add a logout method.

Implemented the update and delete methods in the interface, along with tests.

Implemented the "insert()" method and wrote a test to test it. The new test
depends on the property "newdocid" be set to something unique in the build.xml
file so that the insert will work properly. Probably need to fix this to be
some kind of autoincrement counter or random number so that it can be run...

Refactored to use IOUtil routines. Reformatted for within-file consistency.

Implement query method.

Add metacatinaccessible exception for query.

Implemented the 'read' API call. Some more to go...

Wrote the login() function, the first of the series of API calls for
the metacat client to be implemented. Also wrote a test class to
test the API functionality.

If uploading failed, the inline data will be deleted either.

If xml document uploading failed, the inline data file will be deleted either.

Added a new subpackage (edu.ucsb.nceas.metacat.client) which is a client
access library for the metacat. There is an interface (Metacat.java) that
provides simple access methods for the main metacat functions. This is to
support clients like Morpho and others that want to programatically access...

JAVA 1.3 doesn't support this FileWriter(File fileName, boolean append). But 1.4 does.
Change to FileWriter(String fileName, boolean append). Both 1.3 and 1.4 support.

Fixed bug in replication if doctype is null.

Fixed a bug that replication didn't do inline data.

Change a array size from 4*10(testing) to 4*1024.

Using reader replacing string to read inline data.

Using reader to replace string to read inline data.

Change the way to handle inline data.

When character size is greater than 4000, it will write to db.

Change string to stringreader to save memory.

Change debug level.

Change the year from YY to YYYY

Revise inital value for insert a new server. Change some debug level.

Revise initial value for server registry.

Fixed a bug in registryDataFile.

Delete a debug line.

Change the date format from yy-mm-dd to mm/dd/yy.

Change format from yy-mm-dd to mm/dd/yy.

Get rid of to_date function.

using toDate method rather than to_date function directly.

Revise the toDate method for sql server.

Get rid of toDate method and inherit from AbstractAdapter directly.

Get rid of toDate method. It inherentise from AbstractAdaptor.

Add a concrete method toDate which can transfer text string to date type.

Add new method to handle toDate function.

MetaCat Servlet changed to get correct docid

EML interface Login Servlet

Metacat EMl Upload Interface

• empty log message ***

• empty log message ***

got interservlet session handling working.

fixed errors with jing and my merges

changes to make session management between monarch and metacat work.

Revise code and make it more generic to pass parameters to style sheet.