Activity
From 01/25/2011 to 02/23/2011
02/22/2011
- 09:46 AM Bug #5316: Interactive map doesn't work with firefox
- This is a known issue with the old MapBuilder interface used to render the spatial layers in Metacat 1.9.x.
The forth...
02/19/2011
- 06:57 AM Bug #5316 (Resolved): Interactive map doesn't work with firefox
- The interactive map, for example
http://knb.ecoinformatics.org/knb/style/skins/nceas/map.jsp
doesn't work with ...
02/18/2011
- 12:28 PM Revision 5992 (metacat): turn off the databounds layer by default
- 12:09 PM Revision 5991 (metacat): new lines were showing up in the html source becuase of whitespace in this - removed the white space and the new lines are gone...
- 11:54 AM Revision 5990 (metacat): restyle the eml display and resultset after applying new eml css to the KNB L+F
- 11:16 AM Revision 5989 (metacat): new jar files from common and client
- 10:59 AM Revision 5988 (metacat): fixed width issue with default header
- 10:59 AM Revision 5987 (metacat): new files for mets style
- 10:10 AM Revision 5986 (metacat): [untested] loop through each origin[ator] to make a row for them
02/17/2011
- 05:16 PM Revision 5985 (metacat): restyle the resultset after applying new eml css
- use more robust form-submission js for the datapackage links
- 04:30 PM Revision 5984 (metacat): check for 'null' as well as 'public' user when rendering the header Login/Logout option
- 03:44 PM Revision 5983 (metacat): restyle default eml rendering using ESA look + feel
- 12:11 PM Revision 5982 (metacat): include eml css and then adjust lter skin to accommodate the new xsls
- 11:50 AM Revision 5981 (metacat): adjust stylesheets to accommodate new default eml rendering
- 11:28 AM Revision 5980 (metacat): use latest eml style tag
- 11:24 AM Revision 5979 (metacat): adjust stylesheets to accommodate new default eml rendering
- 09:45 AM Revision 5978 (metacat): use square edges for the borders around table groups and subgroups
- 02:57 AM Revision 5977 (metacat): These are fairly significant changes to MetacatHandler.handleInsertOrUpdateAction() that add in support for creation or update of GUIDs and SystemMetadata. Upon insertion or update of DataPackages from non-DataONE aware clients (such as Morpho), the identifier table is updated by creating a GUID, and the systemmetadata table is updated with fields after the EML document is parsed for distribution information and entity typing. System Metadata documents are also generated and inserted into Metacat. The list of data entities is iterated over and System Metadata is generated for each data file as well.
- 02:39 AM Revision 5976 (metacat): In MetacatHandler I've removed updateSystemMetadata() in favor of additions to insertOrUpdateSystemMetadata(). Modified createSystemMetadata() to reflect the changes as well.
02/16/2011
- 06:23 PM Revision 5975 (metacat): Modified MetacatHandler.createSystemMetadata() to take a localId, not a guid as an argument since there are times when the guid has yet to have been created, and it is created in this method if so.
- Also, put the read() call to get the InputStream of the data/metadata document into it's own try/catch statement.
- 04:36 PM Revision 5974 (metacat): adjust to fit new EML look and feel
- 03:58 PM Revision 5973 (metacat): additional overrides for color
- 03:58 PM Revision 5972 (metacat): added mets to default skin
- 03:25 PM Revision 5971 (metacat): use white links override only in header menu
- 03:11 PM Revision 5970 (metacat): force the leftnav section to wrap their links
- 02:40 PM Revision 5969 (metacat): override problematic CSS properties that were introduced as part of the new look and feel for default EML display
- 01:56 PM Revision 5968 (metacat): Somehow missed adding in javadoc for read(). Here it is.
- 01:52 PM Revision 5967 (metacat): For now, getSystemMetadata() will be private like the other *SystemMetadata() methods.
- 01:47 PM Revision 5966 (metacat): Modified MetacatHandler, updated the getSystemMetadata() method to now use read() and deserializeSystemMetadata() to produce the SystemMetadata object. Exceptions are pushed up the stack, and so accordingly, modified createSystemMetadata() to reflect the changes.
- 01:44 PM Revision 5965 (metacat): stylesheet/skins for mets data
- 11:38 AM Revision 5964 (metacat): use newer EML stylesheet tag
- 11:18 AM Revision 5963 (metacat): correctly include table cells for xsl
- 09:25 AM Revision 5962 (metacat): Modified MetacatHandler, added createSystemMetadata() - generates SystemMetadata objects for newly inserted data or documents. This is intended to be used from handleInsertOrUpdateAction(), and only for documents being inserted from clients that don't support the DataONE interface. The method parses EML documents to discover data entities, and updates the system metadata for those entries, with support for describes and describedBy metadata. Currently doesn't handle FGDC, etc. documents.
- Added sizeOfStream() - Find the size (in bytes) of a stream. Note: This needs to refactored out of MetacatHandler and...
- 09:14 AM Revision 5961 (metacat): Modified MetacatHandler, added three methods:
- getSystemMetadata() - returns a SystemMetadata object from the systemmetadata table using the given GUID. Stub only.
... - 09:10 AM Revision 5960 (metacat): Modified MetacatHandler and added two methods:
- serializeSystemMetadata() - Serialize a SystemMetadata object to XML string
deserializeSystemMetadata() - Deserialize... - 09:07 AM Revision 5959 (metacat): Modified MetacatHandler, added read() - Read a document from metacat and return an InputStream. The XML or data document should be on disk, but if not, read from the metacat database. This method should be optimized, along with others, to not write stream data to disk for performance reasons.
- 09:06 AM Revision 5958 (metacat): To support generation of SystemMetadata and GUIDs, added a number of methods to MetacatHandler that are also in CrudService(). CrudService should eventually be refactored to use the handler methods. Added:
- readFromFilesystem() - Read a file from Metacat's configured file system data directory, and return a FileInputStream...
02/15/2011
02/14/2011
- 02:48 PM Bug #5262: EML document owner can't read the document
- Hrrm, it seems our code doesn't trim the username.
In AuthLdap.authenticateTLS:
I added a information line to displ... - 01:47 PM Bug #5262: EML document owner can't read the document
- Hi, Matt:
Yes, the user name with extra space can login. The username field in EcogridWriter is used for login. The ... - 11:54 AM Bug #5262: EML document owner can't read the document
- Trimming strings on input like this is always dangerous. My guess is that the bug arises because someone through a '...
- 11:42 AM Bug #5262: EML document owner can't read the document
- Somehow, in EcogridWriter actor, author put an extra space after uid=kepler,o=unaffiliated,dc=ecoinformatics,dc=org.
... - 02:03 PM Revision 5956 (metacat): Updated DROP script that was missing tables and sequences.
- 11:45 AM Revision 5955 (metacat): added file extension for txt or csv files
- 11:39 AM Revision 5954 (metacat): correctly pass the search class and value when perfroming Protocol-based and Measurement-based queries (copy and paste oversight).
02/13/2011
- 11:20 AM Revision 5953 (metacat): To support the generatemissingsystemmetadata REST call, modified CrudService.createSystemMetadata() to use DataoneEMLParser and further determine object formats from EML metadata. Formats currently supported are text/plain, text/csv, image/[jpg|jp2|bmp|tiff|png], and only for EML documents with 'ecogrid://' defined entity urls.
- Todo: transition to using the EML Data Manager library's DataPackage parsers to handle a broader set of metadata type...
02/11/2011
- 02:56 PM Revision 5952 (metacat): make Data Object link more subtle since it now appears for each attribute
- 01:57 PM Revision 5951 (metacat): update skin to use new annotation schema - http://ecoinformatics.org/sms/annotation.1.0beta1
- 01:48 PM Revision 5950 (metacat): adding more debuggin and fixing bug with systemmetadata
- 11:42 AM Revision 5949 (metacat): new d1_common jar
- 10:46 AM Bug #5300: SchemaLocationResolver fails to download included xsd files
- Add a new class XMLSchemaPaser which can extract the included schema information.
In XMLSchemaService class, add a ne...
02/10/2011
- 06:09 PM Revision 5948 (metacat): Make the schema with included schemas valid.
- 06:08 PM Revision 5947 (metacat): Add a xml file for inserting during test.
- 06:07 PM Revision 5946 (metacat): Add a method to test download a schema with included schemas.
- 06:06 PM Revision 5945 (metacat): Add code to download the included schema.
- 04:17 PM Revision 5944 (metacat): fixed replication bug where systemmetadata was not getting procssed correctly
- 10:56 AM Revision 5943 (metacat): think I fixed the connection problem. one connection in IdentifierManager was being leaked. added more debug info in case it happens again
- 10:27 AM Revision 5942 (metacat): Add a test file for XMLSchemaServcieTest.
- 10:27 AM Revision 5941 (metacat): Add a static method to get base url base on a schema url.
02/09/2011
- 05:03 PM Revision 5940 (metacat): Add a junit test file for testing the XMLSchemaParser class.
- 05:02 PM Revision 5939 (metacat): Add test schema for downloading included xsd file.
- 05:00 PM Revision 5938 (metacat): A sax handler class can get included schema path.
- 02:37 PM Bug #5300: SchemaLocationResolver fails to download included xsd files
- Here is a way probably resolve this issue:
In edu.ucsb.nceas.metacat.service.XMLSchemaService lcass, we will add two... - 01:40 PM Bug #5300 (Resolved): SchemaLocationResolver fails to download included xsd files
- I am trying to insert an eml document with embedded sensorML into metacat.
But i get the error:
knb 20110209-11:20:... - 11:41 AM Bug #4307: Upgrade Geoserver to prevent Metacat crashes
- Shape files were corrupted by the ant build (filtered copy treated them as text).
Configuration allows for bypass and... - 11:37 AM Bug #2188: replace web client with OpenLayers
- New OpenLayers implementation is now in trunk - old MapBuilder has been removed.
- 11:36 AM Revision 5937 (metacat): remove old spatial templates
- http://bugzilla.ecoinformatics.org/show_bug.cgi?id=2188
- 11:34 AM Revision 5936 (metacat): remove JPL NASA layer - no longer operational
- 10:02 AM Revision 5935 (metacat): photoshop file for creating the on/off query widget for openlayers
- 09:55 AM Revision 5934 (metacat): remove sanparks boundaries from the default map, but allow them to be added as an additional layer from the saeon/sanparks skin.
- use css to style the spatial query search widget control
http://bugzilla.ecoinformatics.org/show_bug.cgi?id=2188
02/08/2011
- 02:08 PM Revision 5933 (metacat): added some debug info to DBConnectionPool
- 02:06 PM Revision 5932 (metacat): include title for the spatial query control widget (on hover)
- 12:06 PM Revision 5931 (metacat): removed comments from crudservicetest
- 12:05 PM Revision 5930 (metacat): fixed typo that prevented replication
- 11:46 AM Revision 5929 (metacat): fixed node response bug
- 11:30 AM Revision 5928 (metacat): add custom Pan/Zoom/Query control. http://bugzilla.ecoinformatics.org/show_bug.cgi?id=2188
- 11:30 AM Bug #2188: replace web client with OpenLayers
- added new map control for metacat spatial query. now you can Pan/Zoom/Search depending on which control is selected
- 10:25 AM Bug #5288: Metacat got "java.lang.OutOfMemoryError: PermGen space" after new geoserver update
- GeoServer recommends increasing your container's default settings:
http://docs.geoserver.org/stable/en/user/productio...
02/07/2011
- 03:41 PM Revision 5927 (metacat): fixed update problem
- 02:49 PM Revision 5926 (metacat): put the pid in the info section of the url
- 11:44 AM Bug #5294: Enable Junit test on http://dev-testing.dataone.org:8080/hudson/job/Metacat/
- It turns out that Metacat is using a customized properties file management system.It makes the properties file more r...
- 11:31 AM Revision 5925 (metacat): Add a comment to the new target install-configured-metacat.
- 11:20 AM Revision 5924 (metacat): Using echo to replace propertyfile in order to avoiding character escape.
- 10:50 AM Revision 5923 (metacat): fixed content type problem where csv files were set as text/xml
02/04/2011
- 06:34 PM Revision 5922 (metacat): fixed problem with count in listObjects()
- 06:14 PM Revision 5921 (metacat): Cleaned up warnings, removed dead code.
- 05:53 PM Revision 5920 (metacat): Updated to most recent DataONE libraries. Updated CrudService to set the correct origin MN and auth MN in system metadata. Refactored exception passing. More work to come in generating SystemMetadata.
- 05:31 PM Bug #5294: Enable Junit test on http://dev-testing.dataone.org:8080/hudson/job/Metacat/
- in above comment, can = can NOT :)
- 05:29 PM Bug #5294: Enable Junit test on http://dev-testing.dataone.org:8080/hudson/job/Metacat/
- The first issue in above comment relates to the second one. When metacat initializes the db service, it can recognize...
- 04:54 PM Bug #5294: Enable Junit test on http://dev-testing.dataone.org:8080/hudson/job/Metacat/
- I will add the target to check the database.
I added two targets into the build.xml. One will set configutil.* to be... - 04:13 PM Bug #5294: Enable Junit test on http://dev-testing.dataone.org:8080/hudson/job/Metacat/
- This sounds good, Jing. One other issue is that the admin servlet runs SQL scripts to create/update databases, etc. ...
- 03:15 PM Bug #5294: Enable Junit test on http://dev-testing.dataone.org:8080/hudson/job/Metacat/
- I just tested if we set:
configutil.propertiesConfigured=false
configutil.authConfigured=false
configutil.skinsConfig... - 01:03 PM Bug #5294: Enable Junit test on http://dev-testing.dataone.org:8080/hudson/job/Metacat/
- <matt> another possibility would be to create a new target in the build that sets those properties explicitly for the...
- 11:54 AM Bug #5294 (New): Enable Junit test on http://dev-testing.dataone.org:8080/hudson/job/Metacat/
- Currently in hudson test, the build will run "ant clean war" to verify the new commitment code would not break the bu...
- 04:45 PM Revision 5919 (metacat): Add a target to change the configuration value to be true.
- 01:05 PM Revision 5918 (metacat): removed debug statements
- 12:39 PM Revision 5917 (metacat): fixed bugs in listObjects
- 11:30 AM Revision 5916 (metacat): Add in correct node references in system metadata.
- 10:29 AM Revision 5915 (metacat): Cleanup harvester exceptions and generics.
- 06:17 AM Revision 5914 (metacat): remove httpclient 3.1 and custom-built httpclient.jar
- rework MetacatClient (and other classes) to use httpclient 4
updated build to not create httpclient.jar
encoding test... - 05:57 AM Revision 5913 (metacat): blank configuration value should be treated the same as null
02/03/2011
- 07:45 PM Revision 5912 (metacat): Fix the MetadataTypeRegisterTest because it had the wrong URI for METS.
- 05:10 PM Revision 5911 (metacat): Added download links.
- 05:06 PM Revision 5910 (metacat): the new name of the jar file.
- 05:05 PM Revision 5909 (metacat): rename this jar file to xercesImpl-2.11.0.jar
- 04:54 PM Revision 5908 (metacat): Additional layout and styles for metacat documentation.
- 04:01 PM Bug #5291: Need update xerces jar file
- Here are what i did:
1) Removed the following files:
tao@pacific:~/project/metacat$ rm ./lib/spatial/geoserver/WEB-IN... - 03:58 PM Bug #5291 (Resolved): Need update xerces jar file
- xcerces 2.7 complains that the sensorML schema is invalid. However, xmlSpy and oxygen don't.
I tried to use xerces... - 03:42 PM Revision 5907 (metacat): UPdated documentation for the web.
- 03:39 PM Revision 5906 (metacat): few bug fixes for listObjects
- 03:38 PM Revision 5905 (metacat): Add new version of jar file from xerces 2.11.0.
- 03:37 PM Revision 5904 (metacat): Add a new version of aml-apis jar file from xerces 2.11.0.
- 03:36 PM Revision 5903 (metacat): Add new version of xerces jar file.
- 03:36 PM Revision 5902 (metacat): Add jar file from xerces 2.11.0.
- 03:34 PM Revision 5901 (metacat): remove old version of xerces jar file.
- 03:34 PM Revision 5900 (metacat): Remove redundant jar file.
- 03:33 PM Revision 5899 (metacat): remove redundant jar file.
- 03:32 PM Revision 5898 (metacat): remove redundant jar file.
- 03:29 PM Revision 5897 (metacat): remove redundant jar file.
- 03:28 PM Revision 5896 (metacat): Remove redundant jar file.
- 03:25 PM Revision 5895 (metacat): added code to do database query for listObjects
- 02:06 PM Revision 5894 (metacat): new properties for d1 MN
- 01:19 PM Revision 5893 (metacat): Cleaned up unused imports.
- 10:21 AM Revision 5892 (metacat): update to ECOGRID_1_2_2RC2 tag
- 09:49 AM Revision 5891 (metacat): remove the empty dir.
- 09:47 AM Revision 5890 (metacat): This is redundant to the WorkflowSchedulerCleintTest in wsfscheduler svn module.
- 09:21 AM Revision 5889 (metacat): use more unique scope (document id prefix) so that getlastdocid runs successfully. use superclass generateDocumentId() method
02/02/2011
- 05:36 PM Revision 5888 (metacat): pass the root exception message up the call chain so that it can effectively be reported as a helpful error message. also, the JUnit test expects the specific error message (SchemaRegistryTest)
- 03:52 PM Revision 5887 (metacat): adding fields for additional system metadata info
- 11:43 AM Revision 5886 (metacat): use the read() method instead of manually calling with parameters
- 10:54 AM Revision 5885 (metacat): new paths for metacat populator
- 10:54 AM Revision 5884 (metacat): new common and client jar
02/01/2011
- 07:15 PM Revision 5883 (metacat): remove this optional ant jar - seems to conflict with other versions of ant when running junit tests. also, it's not needed for the geotools use we have
- 05:13 PM Bug #5288 (Resolved): Metacat got "java.lang.OutOfMemoryError: PermGen space" after new geoserver update
- Today, I updated my metacat source tree to get the changes on the geoserver part.
After installing the new Metaca... - 05:05 PM Revision 5882 (metacat): Add the junit jar file back to the lib. There is no change needed in build.xml.
- 12:13 PM Revision 5881 (metacat): some new code for debugging mmp
- 11:53 AM Revision 5880 (metacat): Update to v1.10.0 and include new GeoServer configuration instructions
- 11:52 AM Revision 5879 (metacat): correct typo in instructions
- 10:54 AM Revision 5878 (metacat): Using <xsl:value-of select="."/> to replace <xsl:value-of select="./"/>. Somehow, the latter is not valid anymore.
01/31/2011
- 04:16 PM Revision 5877 (metacat): include bypass option
- 03:51 PM Revision 5876 (metacat): removing old httpclient jar
- 03:49 PM Revision 5875 (metacat): removing utilities.jar
- 03:48 PM Revision 5874 (metacat): updated the populator
- 03:48 PM Revision 5873 (metacat): new http libs
- 03:31 PM Revision 5872 (metacat): include geoserver.war in the 'install' target but also allow 'bypass' option when geoserver is not deployed next to metacat
- 01:52 PM Revision 5871 (metacat): merge documentation from 1.9.3 branch before adding 1.10.0 changes
- 01:30 PM Revision 5870 (metacat): added code to run an squery for listObjects instead of an anyfield query
- 01:22 PM Revision 5869 (metacat): fixed compile errors
- 11:56 AM Revision 5868 (metacat): remove "Bypass" action
- http://bugzilla.ecoinformatics.org/show_bug.cgi?id=4307
- 11:55 AM Revision 5867 (metacat): always re-write web.xml in case geoserver has been redeployed
- http://bugzilla.ecoinformatics.org/show_bug.cgi?id=4307
- 11:29 AM Revision 5866 (metacat): include geoserver.war when building the distribution
- move xalan jar into common lib where it is used to compile lsid support
http://bugzilla.ecoinformatics.org/show_bug.c...
01/28/2011
- 07:22 PM Revision 5865 (metacat): do not use "filtering" on binary shape files - they will be corrupt
- http://bugzilla.ecoinformatics.org/show_bug.cgi?id=4307
- 05:53 PM Bug #4307: Upgrade Geoserver to prevent Metacat crashes
- I seem to have introduced invalid shapefiles - perhaps when committing them to SVN. Will have to check alternate chec...
- 05:34 PM Bug #4307: Upgrade Geoserver to prevent Metacat crashes
- keeping this opened until additional tasks are completed:
-package geoserver.war (v2.0.2) along with Metacat's knb.wa... - 12:16 PM Bug #4307: Upgrade Geoserver to prevent Metacat crashes
- We are now using Geotools 2.6.4 (from Geoserver 2.0.2) to read/write the shape files.
Geoserver is deployed in a diff... - 05:30 PM Bug #2188: replace web client with OpenLayers
- TODO:
-create a way for skins to reuse the common map rendering but still perform spatial queries with their results ... - 12:19 PM Bug #2188: replace web client with OpenLayers
- Re-implementing the features we have in MapBuilder in OpenLayers:
1. named locations drop down
2. spatial query when ... - 05:18 PM Revision 5864 (metacat): use the demis layer as default
- 05:12 PM Revision 5863 (metacat): remove cache files - each instance should create these when needed
- 03:54 PM Revision 5862 (metacat): use OpenLayers implementation for rendering map/spatial search - has it's own copy of locations and a different bound for the map
- http://bugzilla.ecoinformatics.org/show_bug.cgi?id=2188
- 03:53 PM Revision 5861 (metacat): use OpenLayers implementation for rendering map/spatial search
- http://bugzilla.ecoinformatics.org/show_bug.cgi?id=2188
- 03:52 PM Revision 5860 (metacat): Modified MetacatPopulator to deal with change in D1Client static methods.
- 03:30 PM Revision 5859 (metacat): include name attribute for location selection widget
- 03:00 PM Revision 5858 (metacat): break the map generation into parts for easier re-use/customization in other skins
- 01:59 PM Revision 5857 (metacat): added more code for new mmp requests
- 12:25 PM Bug #2180: Make it easier for admin to add new layers
- It's true that Geoserver does all of this except including the new layer in a rendered map in Metacat.We could includ...
- 12:21 PM Bug #4680: Geoserver StringIndexOutOfBoundsException
- We are now using Geotools 2.6.4
- 12:09 PM Revision 5856 (metacat): include standard list of named locations - zoom map to that location when selected
01/27/2011
- 03:59 PM Revision 5855 (metacat): include default password for geoserver admin - though metacat need not really know what it is.
- 03:51 PM Revision 5854 (metacat): bug fixes
- 03:23 PM Revision 5853 (metacat): already have log4j (1.2.12)
- 03:21 PM Revision 5852 (metacat): remove older jars to avoid duplication/complications
- 03:08 PM Revision 5851 (metacat): refactor checksum and some other stuff
- 02:44 PM Revision 5850 (metacat): include a default location for the Geoserver data directory (under the metcat deployment)
- 12:17 PM Revision 5849 (metacat): added some debug lines
- 09:52 AM Revision 5848 (metacat): new common lib
01/26/2011
- 04:11 PM Revision 5847 (metacat): rework geoserver configuration:
- -geoserver context is set to 'geoserver' by default, but can be reconfigured
-data directory is set in the geoserver ... - 04:06 PM Revision 5846 (metacat): add boolean return to indicate whether or not a property was modified
01/25/2011
- 05:02 PM Revision 5845 (metacat): invoke spatial search when bounding box is drawn or click on map
- 03:50 PM Revision 5844 (metacat): trying to get the new MMP handler working with ResourceHandler
- 03:18 PM Revision 5843 (metacat): updating commons-fileupload to 1.2.2
- 02:49 PM Revision 5842 (metacat): Change the ecogrid tag to tags/ECOGRID_1_2_2_RC1.
- 01:57 PM Revision 5841 (metacat): fullclean will remove entire ecogrid dir rather than just two files.
- 01:19 PM Revision 5840 (metacat): update the SLD for data boundary layer
- 11:08 AM Revision 5839 (metacat): omit spatial exclusions that do not exist (part of the geoserver removal)
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