Metacat

Initial checkin of LSID support code for metacat. The LSID support here
provides access to metacat documents through an LSID identifier. The
identifier takes the form:
urn:lsid:ecoinformatics.org:jones:1:1

See http://lsid.sourceforge.net for more details....

Added an attribute to the metacat shapefile called area_coef which is a function
of the areal extent of the datapackage -- so a datapackage which was related to
a global collection would have a large extent, whereas a 3-foot squared plot
would have a small extent. Also fixed a bug related to the ID field that was...

Move the compile.path to init so it can get some property value.

user jdbc-jar-name to replace the hard code zip file name

Add the copy command for jdbc to war file. Otherwise in oracle, the servlet couldn't find jdbc driver.

Refactored the build to use a <path> element for the classpath rather
than ant properties. This makes the classpath easier to manage, but required
changes throughout the build. I think everything should still build fine --
it works for me.

Upgraded the JDBC driver for postgres to the version 8 driver....

Added a target called metacat spatial to build the spatial stuff.

Add log4j jar to the lib path

Added three new options for specifying the moderators, allowed submitters and submitters who are not allowed

Add some new filter for timed replication seting.

Added target for upgrading DB to version 1.6

Removing dependency on webmdentry module

Replacing token for checkout of eml-2.0.1

Added tomcat5 in build.properties
In build.xml, fixed a bug from previous commit

Added code which checks out utilities from cvs. Modified distsrc to include utilities src also. Changed version from 1.4 to 1.5

• empty log message ***

Added code which creates the triggers for the new tables. This is for Oracle only.

Modified so that database upgrade script to version 1.5 is called based on which database the user is using.

Modify harvestListEditorDist target to create the Harvest List Editor distribution using naming conventions that are consistent with other KNB releases.

upgrade-db-1.5.sql will be written back from src to distribution src.

Add a new target to fix the bug in xml_catalog table.

Fixed a bug which systemid will always points to knb.

Add harvestListEditorDist target for building distributable versions of the Harvest List Editor tool.

adding token for name of the database being used

Added target and code for upgrading database to version 1.5

Fixed a bug in previous commit. Also removed ^M characters that were added in version 1.200

Integrating build.xml from webmdentry into metacat build file.

Modify property values of harvester registration servlets to match the servlet-mapping URL values in web.xml. The old values used the servlet class names. This worked in Tomcat 4 but seems to break in Tomcat 5 on Windows. The new values use the servlet-mapping URL values. This should work in both Tomcat 4 and Tomcat 5.

Modified build dist and distsrc targets to be sure the ant tokens are
filtered correctly in the documentation, otherwise the CSS styles do not
show up properly.

Modified the build to be smarter about making sure that the EML schemas
and styles are in place (so manually running 'geteml' should no longer
be needed), and renamed the 'loaddtdschemas' target to 'register-schemas'.
Reorganized and clarified installation instructions to make the order of...

Moved deletion of stylsheets from clean to fullclean target so that the
styles will be guaranteed to be in place in the released version even after
a clean build.

Added classpath to javadoc call so that we avoid javadoc errors that
complain about not being able to find the servlet classes.

Added dependency check for eml so that the schemas and dtds are not
checked out of CVS if they already exist in the lib directory. This is
based on checking for the key schema or dtd file from the 2.0.0beta6,
2.0.0, and 2.0.1 releases, so if you've messed with this directory in...

Added dependency check to see if the httpclient.jar and utilities.jar are
already present in lib. If they are, building utilities is skipped. This
allows us to ship a distribution with just the jar files rather than the
source from the utilities module and still have the compile work. Now...

Added a property listing servlet administrators.

Add properties and filters for harvester registration servlets

corrected wrong variable names in build file.

Updated build.xml to use new sql scripts.

Updated tag names to be checked out of CVS for EML

Changes directory names and paths of eml checkouts. Added eml-2.0.1 to the eml versions to be checked out.

Replaced EML2.0.0 checkout tag from EML_2_0_0_FOR_METACAT to EML_2_0_0_FOR_METACAT_WITH_BUGFIX

Added images to install-skin target.

Change the systemidserver to http://{httpserver}.

Add eml200 and eml210 namespace here.

Remove Harvester code from compile and jar targets.
Add testharvester target for independently testing Harvester code.

Remove copy of schema file from harvester target

Add install-sql property for MS SQL Server
Add copy task to harvester target

Updated build.xml to add targets for doing the 1.4 database sql upgrades.
Also note I made it work with both oracle and sql, and note that the MS
SQL Server sql scripts seem to be lacking -- some are missing. Need to
resolve this before release.

Changes to harvester targets

Made changes so that *.gif and *.png are copied without filtering.

Debug level was changed and a few extra lines were added in last commit.
Restored those to previous values.

Added target for installing skins. Target name is install-skin. It is dependent on init. It take skin name as input from user, creates a directory in skins directory and copies files to that directory.

In test client package, get rid of HttpClient in parameter. Because, http client has cookies and we couldn't test session id.

In order to use tomcat five, a couple of changes in web.xml need to take place.
I'm adding in web.xml.tomcat5 as a choice with the changes.

Changing version in build in preparation for a release.

Removed obsolete SRB support files that are no longer used.

Build changes that allow the registry install dependency on the beta
6 stylesheet converters to be automatically satisfied. Now, if the
webmdentry module hasn't been checked out, it is, but otherwise the
checkout is skipped. A similar technique could be used for the EML...

New build system that creates a war file and deploys it to tomcat. Also
updated the web.xml files so that a better servlet path is used. Now, by
default, the servlet path will be: /knb/metacat (as opposed to the
prior servlet path which was /knb/servlet/metacat and depended on the...

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...

Add harvester targets

added conditional setting of tomcat servlet.jar path, based on tomcat version in build properties

overhaul of ant build file. removed duplicate code for getting dtds and schema. Renamed these targets, pulled all code for copying xsl into a single target (still need separate targets for getting beta6 eml files nad eml2+ files, since older version uses dtds instead of schema.) In future, as eml versions are added, the geteml2+ target shoudl be updated to use the ant iterator class found in the utilities module - this would enable the cvs tags to be defined as a comma-delimited list, and then a common target can be called multile times to do the checkouts, instead of duplicating code. Also added description= attributes to all the targets that looked as if they shoudl be public. These now appear (with their descriptions) when the user types ant -projecthelp

changed getdtdschema tarhet to copy eml css to cvs source tree metacat/lib/style/common directory, same as the copy for the XSL stylesheets. Created new ant parameter to hold value of path lib/style/common.

changed knb skin index page to forward to knb site and include any user params in url. changed resultset.xsl so qformat is handled properly in posts. changed build file to copy default.css from eml checkout to style/common so other skin-specific css can import it if reqd

added line to installCommon target that copies the metacat-client.jar to the WEB-INF/lib directory

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)....

Renamed the upgrade sql files to more understandable names, updated the
build file to include some new targets for running these files, and
updated the installation docs to clarify which upgrade scripts need to
be run and when.

Add the code copy jdbc file to web-info/lib dir. Because the oracle jdbc.jar is not in our lib dir.

Streamlined installation of jars in build file.

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 creating grid service.

Delete some duplicate lines.

Separte compiling client src file from Metacat basic installation.

change the destdir from build.src to build.dest in compileinterface target.

Get rid of stringclient compilation when install metacat.

Add a new target to test application for metacat web service.

Add new target to create gar file for web service.

Remove one varible - itis for itislib.jar

Add a new user and passwd for another user who doesn't have permssion try to read, delete, update xml files.

Updated build file to build utilities more reliably.

New test code for metacat client. Auto-generate id. Query and read from
the inserted document. Still having some problems with the 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...

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.

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...

Change the code for getdtd getschema and getdtdschema. Eml module will be check out to build/tmp rather than build/src. Otherwise it will cause problem in knbweb install.

Change tomcat version from 3 to 4. So it will consistent with server.jar file location.

Because MS SQL server has 3 jar files for JDBC, so revised build.xml.

add some new variables for JDBC in MSSQL.

Add new target for sql server.

Add a new property of tomcat version. This one will control which web.xml file will be copied to installation directory.

Add a getschema dependcy to target dist.

Change eml2 tag to STMML_SCHEMA_UPDATE.

Add new parameter stmmlnamespace.

changes to make session management between monarch and metacat work.

Revise some templates and in build file, when we compile, it would include harvest.

Add new target getdtdschema and get rid of htttpclient.

Add httpclient.jar into cpath.

Change dtdsql target to dtdshemasql.

Add variable replication error log file.

Add a variable for itislib.