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metacat / src @ 527

# Date Author Comment
527 11/13/2000 10:11 AM bojilova

changes for using SRB v1.1.8 at LTER, NM

524 11/09/2000 02:04 PM berkley

changed naming scheme

523 11/09/2000 01:55 PM berkley

changed naming scheme

522 11/09/2000 01:41 PM berkley

changed naming scheme

521 11/09/2000 01:23 PM berkley

servlet to handle metacat replication requests.

520 11/09/2000 01:21 PM berkley

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

519 11/09/2000 01:21 PM berkley

a parser to handle replication xml messages

518 11/08/2000 03:06 PM bojilova

change for using the db connection

517 11/08/2000 10:18 AM berkley

updated xml_relation table

515 11/07/2000 08:22 PM Matt Jones

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

514 11/06/2000 05:21 PM Matt Jones

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.

513 11/06/2000 10:38 AM bojilova

bug fix about util.openDBConnection() for xmlIndex tread

512 11/03/2000 12:02 PM bojilova

small fix for exception when srbMaster is not running

510 11/03/2000 09:38 AM bojilova

XSLT transformation on "login" and "logout" action

509 10/31/2000 03:26 PM bojilova

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...

505 10/27/2000 07:07 PM Matt Jones

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

504 10/26/2000 02:38 PM Matt Jones

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)...

503 10/24/2000 01:03 PM bojilova

merge AUTH_LDAP to the main branch

502 10/24/2000 09:07 AM bojilova

clear System.exit(0) within the static block

497 10/05/2000 06:50 PM Matt Jones

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...

491 10/03/2000 04:28 PM bojilova

Included script for insert of all eml dtds.

489 10/03/2000 03:48 PM berkley

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.

486 10/03/2000 02:23 PM berkley

removed debug print statements.

485 10/03/2000 02:16 PM berkley

added code for getting stylized related documents

483 10/03/2000 12:55 PM berkley

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

478 09/29/2000 03:37 PM berkley

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

476 09/28/2000 11:05 AM bojilova

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

475 09/27/2000 02:37 PM berkley

removed system.out.printlns

473 09/27/2000 01:11 PM berkley

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

472 09/27/2000 01:10 PM berkley

added package and resource data and structures

471 09/26/2000 04:02 PM bojilova

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....

466 09/26/2000 03:07 PM berkley

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

465 09/26/2000 03:06 PM berkley

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....

464 09/26/2000 01:03 PM bojilova

included new method getPoolSize()

463 09/20/2000 02:50 PM berkley

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

462 09/20/2000 01:25 PM bojilova

fix the small bug with output like:
Fatal processing error

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

461 09/20/2000 01:22 PM bojilova

writeDocID() not needed any more
throw SAXException from everywhere

460 09/20/2000 01:21 PM bojilova

on character(cbuf, start, len) included:
if currentNode.getTagName().equals("title")
currentDocument.setTitle(cbuf)
instead of using:
currentDocument.setTitleFromChildElement() in endDocument() call

459 09/20/2000 01:15 PM bojilova

change Assession# generation to use the same db connection

458 09/20/2000 10:58 AM berkley

Updated the download data function. the download data function now pulls a document from the database, zips it up and sends the zip stream to the client. It also zips up any related files. a relation parameter is used to pass related files to the servlet. If only one document should be zipped and sent, a single docid in the param hashtable is sufficient.

457 09/15/2000 05:40 PM bojilova

changes related to decrease the time of INSERT of document.
With these changes I inserted 200KB file for 3 minutes, 50KB for 50sec.
This is mainly simplifing the DBSAXNode class and
using batching feature of Oracle JDBC driver.

454 09/15/2000 12:53 PM berkley

This allows for the easy handling of metacat:// urls. The documentation in the source code explains the specification for the url in detail.

453 09/15/2000 12:52 PM berkley

Added functionality for package specifications. metacatservlet now contains a new action called getrelateddocument that handles retrieving related documents using the metacatURL specification (metacatURL.java). DBQuery contains new code in runQuery that embeds relation tags in the returned hashtable describing the documents related to each docid. querySpecification contains a new method which prints the sql that does the relation query.

452 09/14/2000 12:33 PM bojilova

store generated Access# in meta_file_id tag if there are any

451 09/13/2000 03:03 PM bojilova

fix bug in toXML() about getting output of XML document like:
<paragraph</paragraph>>

450 09/13/2000 01:59 PM berkley

added parentnodeid to xml_index table

449 09/13/2000 01:57 PM berkley

added parentnodeid to xml_index

447 09/13/2000 01:09 PM bojilova

fix for "Document not found" err message on "getdocument" action

446 09/13/2000 01:07 PM bojilova

fix for "public" authentication

445 09/12/2000 01:38 PM bojilova

xml_documents.public_access modified to be
NUMBER DEFAULT 1
ie all documents to have public access by default

444 09/12/2000 12:42 PM berkley

removed print statments

443 09/12/2000 12:28 PM berkley

fixed xml tag error in squer

442 09/12/2000 11:24 AM berkley

fixed bug in handleSQuery that returned the tag in the <query> tag of a resultset.
BugID:
Submitted by:
Reviewed by:

441 09/12/2000 10:37 AM bojilova

added check from "read" permission on "query" and "squery" actions
for connected user or for "public" connection

440 09/11/2000 01:36 PM bojilova

3 indexes added on:
xml_nodes (rootnodeid)
xml_nodes (parentnodeid)
xml_documents (docid, doctype)

439 09/06/2000 09:34 AM berkley

sql file defining the table structure for eml-package data.

437 09/05/2000 01:51 PM berkley

added support for getabstract action

436 09/05/2000 01:50 PM berkley

Added a method called getNodeContent which retrieves the content of a node in a document. If there are more than one nodes with the same name returned, it returns an array with all of the data.

434 09/05/2000 08:46 AM berkley

added resource.xsl to the catalog

433 09/05/2000 08:45 AM berkley

no message

431 09/01/2000 05:37 PM Matt Jones

Modified MetaCatServlet to use the new DocumentImpl.toXml() method for
efficiency of reading documents. See bugzilla bug #111 for an explanation.

429 09/01/2000 05:14 PM Matt Jones

Fixed document reading bug (bugzilla bug #111) so that reading documents
is no longer a power function of the number of nodes in the document
(which used to be the case). Now, reading a document occurs entirely
within DocumentImpl, by making a single SQL call to get the document data,...

428 09/01/2000 01:47 PM bojilova

change the 2 executions in archiveDocRevision()
with 1 statement:
"insert into xml_revisions
select ... from xml_documents where docid = ..."

427 09/01/2000 12:04 PM bojilova

small changes on hasWritePermission()

426 08/31/2000 05:08 PM bojilova

get rid of the FK in xml_acess table that points to xm_documents.docid
since xml_access.docid(s) point to current and revised documents
(ie xml_documents.docid and xml_revisions.docid)

425 08/31/2000 05:01 PM bojilova

storing user_owner and user_updated where needed
new function in DocumentImpl checking for "write" perm on UPDATE or DELETE
added delete from xml_index of the old version of docid on UPDATE

424 08/31/2000 02:43 PM berkley

this file is no longer used.

423 08/31/2000 02:20 PM berkley

changed xslf for new returnfield scheme. the returnfields are now returned as <param name="<returnfield>"> tags.
hThe sql for the returnfield query was redone to fix a previous problem with slow queries

421 08/30/2000 11:19 AM bojilova

cleared static methods in AccessionNumber classes for fixing bug found
when multiple requests to the servlet at a time.

415 08/28/2000 01:28 PM Matt Jones

Minor update to remove unneeded constructor in DocumentImpl class.

414 08/28/2000 11:38 AM bojilova

new table xml_access and new attrs to xml_documents for ACL

413 08/25/2000 04:18 PM bojilova

for getDoctypes() added
WHERE entry_type='DTD' condition in the select statement

411 08/25/2000 01:49 PM bojilova

Changes with Srb authentication: including quering of Srb/MCAT during the Srb connection for:
- groupname of connected user
- list of groups and users in MCAT for ACL function for MetaCat

408 08/24/2000 06:28 PM Matt Jones

Continued code redesign for the DocumentImpl class. Now the "delete" and
"write" methods are static, so a DocumentImpl objject need not be created
in order to initiate a INSERT, UPDATE, or DELETE action (it is created
implicitly by the DBSAXHandler). When doing a "READ" action, one still...

407 08/24/2000 04:47 PM Matt Jones

Folded the functionality from DBWriter into DocumentImpl, continuing the
work started earlir to create a more DOM-like model for the classes, in
which a single DocumentImpl class handles both reading and writing of
documents to the database. Modified shell scripts and MetaCatServlet to...

405 08/23/2000 03:55 PM berkley

changed the field names to be case-sensitive in the returnfields

402 08/23/2000 10:29 AM berkley

added support for the returnfield parameter
-QuerySpecification now sets a flag (containsExtendedSQL) when there are returnfield items in the pathquery document.
the accessor method containsExtendedSQL() can be called by other classes to check for extended return parameters...

401 08/23/2000 10:22 AM berkley

added support for the returnfield parameter
-added the dynamic parameters to the returned hash table of documents

400 08/23/2000 10:20 AM berkley

added support for the returnfield parameter

396 08/22/2000 11:56 PM Matt Jones

Folded the functionality from DBSAXDocument into the DocumentImpl class.
Now DocumentImpl handles both the reads and the writes to the database.
Eventually, it will implment the full DOM Document interface. Eliminated
the DBSAXDocument.java file as it is no longer relevant....

394 08/22/2000 10:34 PM Matt Jones

Removed DBReader.java because the functionality of that class has been
replaced by the more efficient DocumentImpl class.

393 08/22/2000 10:32 PM Matt Jones

Created new class "DocumentImpl" which represents an XML Document. This
document will eventually implment the DOM Document interface. For now,
it implments all of the functionality that was present in DBReader, plus
cuts down on the number of database calls required to read a document. And...

392 08/21/2000 03:41 PM Matt Jones

Added script to register document types in the xml_catalog table for our
common public ID's.

390 08/21/2000 03:19 PM Matt Jones

Added new utility query to return all of the xml_nodes info for a given
document id in metacat.

389 08/21/2000 02:55 PM Matt Jones

Updated documentation for NodeComparator.java.

388 08/21/2000 02:52 PM Matt Jones

Modified the DBReader and ElementNode classes to more efficiently read
documents from the database. In the old implementation, a db connection
was opened for each and every node in a document, recursively fromthe root
node. In the new implementation, all of the data from xml_nodes is...

385 08/18/2000 03:44 PM berkley

marineServlet now overrides the transformQuery() function to allow it to put the values back into the text boxes of the xsl stylesheet rendered form.

384 08/18/2000 03:41 PM berkley

-fixed the bug where a pathquery document was not valid inside of the <query> tags in a resultset document.
-provided override support for a new function called transformQuery() which allows specific applications to
customize what is returned in the <query> tag

383 08/18/2000 11:05 AM Matt Jones

Fixed small bug in transforming the document to HTML. If there was
no stylesheet for a given doctype, and so the transformation couldn't
occur, the XML doc was returned, but the content-type was still set
(incorrectly) to html. Now it is not set to text/html when an xml doc is...

382 08/18/2000 10:56 AM berkley

removed extraneous protected tags and replaced them with private tags

380 08/18/2000 10:38 AM Matt Jones

Modified behavior of handleSQuery() to now send the resultset document
back to the client application -- this was a bug introduced by recent
changes to the servlet. Also, generally cleaned up the servlet to
produce cleaner documentation and removed some extraneous code and remarks....

377 08/17/2000 05:29 PM Matt Jones

Updated default html forms for metacat queries to use the "anyfield"
keyword for constructing a default query. This should now work with
the new handleQuery method of MetaCatServlet.
BugID:
Submitted by:
Reviewed by:

376 08/17/2000 03:21 PM berkley

changed to work with the new MetaCatServlet model. marineServlet now only overwrites one method in MetaCatServlet.

375 08/17/2000 03:20 PM berkley

changed the prototype of overwritable functions to "protected" instead of "private".

374 08/17/2000 11:06 AM bojilova

change the resultset format for DataGuide

373 08/17/2000 09:04 AM berkley

Changed the flow of query and SQuery. SQuery now only handles a preformatted pathquery document as input (in the "query" parameter).
HandleQuery now handles all structured queries derived by CGI parameters.

372 08/17/2000 09:02 AM berkley

Made changes to createSQuery to allow for multiple parameters of the same name. Also changed the param list to include only "Hashtable params" without a "String doctype" since the doctype is already contained in the params.

371 08/16/2000 01:08 PM berkley

fixed bug with handleSQuery() that kept DMan from access the squery functionality

370 08/16/2000 11:48 AM berkley

- created transformResultset() which transforms an xml resultset document and displays it to the client useing DBTransform
- renamed transformDocument() to createResultDocument() and modified its functionality to only return a restultset xml document
- changed handleSQuery() and handleQuery() to use the new methods

365 08/15/2000 02:52 PM Matt Jones

Repository reorganization, and some file cleanup to make the XSL and CSS
files portable to various installations of metacat (by using the
build.xml file substitution in the XSL files). Removed "xsqltest" directory
because it is no longer needed. Created new "style" directory inside of...