Metacat

cleaned up code, added new static methods to MetacatReplication for handling static queries and getting URL content.

updated insert handling and added an action to request the time from a remote server.

created locking action in replication servlet and added semi-support to documentImpl to handle documents updatedee by replicatio

Modified stylesheets and server code to use a single "read" action instead
of the earlier "getdocument" and "getrelateddocument" actions. In the
process, developed and started to utilize a new suite of URL "protocol
handlers" that are in the package "edu.ucsb.nceas.protocols" and handle...

Fixed typo in create table syntax (added missing comma) for xml_access table.

Modified the build.xml file to support the new protocol handler classes,
which need to be built in a separate jar file bust it must be installed
as part of the tomcat servlet environment, not the web application. Now a
command of "ant protocol" will create the protocol.jar file, which must be...

Added a new URL protocol handler class for the metacat protocol. This
class will replace the current MetacatURL class in a much simpler and
extensible manner. See the documentation for java.net.URLConnection and
java.net.URL for details.

this class allows the parsing of xml data sent by a replication server to assertain document info about a remote document.

added functionality to allow the replication servlet to assertain and insert user and group info into the local database. started implementation of insert replication handler (it is commented out in this commit)

CREATE TABLE xml_access (
docid VARCHAR2, -- the document id #
principal_name VARCHAR2, -- name of user, group, etc.
permission NUMBER, -- "read", "write", "all"
perm_type VARCHAR2, -- "allowed" or "denied"
perm_order VARCHAR2 -- "allow first" or "deny first"...

fixed compatibility problem by overloading the write method. Jivka's new parameter (Reader acl) is now defaulted to null if it is not explicitly declared.

fixed typo that was accidentally committed.

added interface to handle a new "acl" parameter bringing the text of a xml access file for a given metadata document
the "acl" parameter is optional and should be sent on INSERT or UPDATE action.

added ticket_counter and deny attributes to xml_access table

new class for parsing ACL XML file and loading acl data into metacat db

added delete functionality

Add the eml style sheet into metacat module.

added support for server_location in the xml_revisions table.

removed inadvertent comments

added needed table fields for storing document location in xml_documents

removed dependence on a server code in the accession number of each document. the file's resident server is now located in xml_documents.server_location.

changed alpha to dev in odbc driver param

removed servercode param

removed server-code param

no message

added new server_location field to xml_documents with a foreign key to xml_replication.serverid

now updates the xml_replication last_checked field

updated javadoc documentation

fixed bug/typo

no message

added server-code property

added servercode prop.

no message

changed action scheme

Modified pathquery.dtd and QuerySpecification to allow some new constraints
on queries submitted to Metacat. Now, queries can contain an optional
set of <owner> tags that identify the users for which documents should be
returned, and a list of <site> tags constraining the site identifiers...

can now send a file to another server

can now download a document from a server

no message

Changed utility query to include the user_owner field rather than the
title field, which is now obsolete.

Fixed typo in DBSAXHandler debug message.

not needed any more

it is not needed to be here

changes for using SRB v1.1.8 at LTER, NM

SRB v1.1.8

added replication properties

changed naming scheme

changed naming scheme

changed naming scheme

servlet to handle metacat replication requests.

a timer based thread that does Delta-T replication checking.

a parser to handle replication xml messages

change for using the db connection

updated xml_relation table

Changed target of the javadoc builds to the build/docs/apiDocs directory
so that we no loger version track the javadoc html files -- they changes
too much between each of the times we would generate them. Also, removed
the old javadoc documentation that was found in the "docs" subdirectory.

Updated the Javadoc documentation so that the current release can be provided
on the web site.

Fixed problem with AuthInterface, AuthLdap, and AuthMcat where the
sigantures of the methods of these classes were not in agreement, which was
causing AuthLdap to no longer compile. Changed parameter signatures so that
the 'user' parameter is used consistently in all of the methods.

bug fix about util.openDBConnection() for xmlIndex tread

small fix for exception when srbMaster is not running

not needed

XSLT transformation on "login" and "logout" action

AuthMcat
- new class for authentication through MCA; implements AuthInterface
AuthSession
- assigning HttpSession obj only after successful athentication;
- cleared isAuthenticated field - not needed
- cleared invalidate() method - not needed
AuthInterface...

added "qformat=html" form parameter for "login" and "logout" actions

changed action's value:
"Login" to "login"
"Logout" to "logout"

Modified stylesheets to use the default.css file from the new KNB web site.
Also, provided a new resultset.xsl that represents a simple freetext query
of the KNB data repository. Updated build.xml to relect the location of the
new css stylesheet.

Began work on new UI for the KNB web site. It will be the main query
interface from the KNB website.

Fixed the LDAP authentication adapter (AuthLdap.java) so that it now looks up
the distinguished name for a user before attempting to do authentication.
This is because the user's distinguished name can sometimes be based on
their uid attribute, but sometimes be based on their cn (common name)...

merge AUTH_LDAP to the main branch

clear System.exit(0) within the static block

Fixed typo in stylesheet.

More user interface changes to the HTML MARINE interface. Minor
rearrangement of columns, some link changes.

Replaced imagemap with anchor links in the web interface to simplify the
rearrangement of the interface. This new feature uses javascript to
submit the form when the link is clicked.

Various changes to improve consistency of the MARINE and METACAT user
interfaces as presented through the XSL->HTML conversions. Eliminated
one (extraneous) copy of the rowcol.css style sheet in favor of sharing
a single css stylesheet in xmltodb/lib/style/rowcol.css. Modified all...

Included script for insert of all eml dtds.

added functionality to return the doctype of a relation in a relationdoctype tag. This information is now returned automatically in the resultset under the path resultset/relation/relationdoctype.

added ability to enterpret relationdoctype tag.

added new linkage to the title in the table

removed debug print statements.

added code for getting stylized related documents

allowed both indexing threads to run without interfering with each other.

made package changes

- cleared copyfile of marine.properties since it is no longer in use
- added copyfile of srbProps.properties from xmltodb/lib to the servlet classpath
same like metacat.properties

moved it from src/edu/ucsb/nceas/metacat dir to here

fixed bug that caused a nullPointerException when a null resultset was returned.

changed the look of relations

Changed to prevent the insertion if the provided Accession# is in use as Dan suggested.

removed system.out.printlns

added a "server" parameter which tells the system the path to the server on which metacat is running. This is used for metacat:// urls.

added support for urls of the form "metacat://server.xyz.com?docid=XXX:yy"

added package and resource data and structures

Separate thread used for writing into xml_index table.
This cut the time of the response on insert almost in half.
The tread is started afterwards
(on end of document parsing and inserting into xml_nodes) from
DBSAXHandler and uses new(separate) db connection....

added new fields

added support for returndoc handling.

added a packagedoctype parameter so that the servlet knows what kind of doctype a package

updated for returndoc field

This class syncronously indexes any package file that is loaded into the database.r

Added backtrack functionality. Backtracking works by passing a returndoc parameter. There can be more than one. If a document that is hit by a query is not of type returndoc then it searches the database for a related file of type returndoc. If one is found it is displayed, if no relation is found, the original is displayed....

included new method getPoolSize()

added extra timing information to the main() driver method.

fix the small bug with output like:
Fatal processing error

<success>
<docid>null</docid>
</success>
on hadleInsertOrUpdateAction()

writeDocID() not needed any more
throw SAXException from everywhere