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metacat/src @ 8718

Name Size Revision Age Author Comment
  com 2532 almost 19 years sgarg renaming enum to catalogEnum to prevent compila...
  edu 8718 about 10 years ben leinfelder attribute the datapackage to the creator (using...
  org 5030 over 14 years daigle Change location of PropertyService to propertie...
  perl 8540 over 10 years Jing Tao Use an array of a hash to keep the orgName/orgL...
  php 3134 over 17 years perry added gpl header to php metacat lib
  python 8265 over 10 years ben leinfelder Refer to metacat.war deployments since those ar...
  query-client 2824 over 18 years tyburczy Unix port of transform.bat
  ruby 3132 over 17 years perry Initial import of Chad Burt's ruby metacat client
  scripts 8707 about 10 years ben leinfelder include SSLVerify* directives for client certif...
LTER_DOI_conversion.sql 717 Bytes 7283 almost 12 years ben leinfelder remove the non-doi identifiers before updating ...
addforeignkeyfortable.sql 135 Bytes 1626 about 21 years Jing Tao Create a foreign key for table accesssubtree.
alter-datafile-for-knbbackup.sql 1.66 KB 2662 over 18 years Jing Tao Add a new sql file to alter control file which ...
apply-xmlconstraints-postgres-knb.sql 6.23 KB 7181 almost 12 years ben leinfelder script for re-applying missing FK constraints o...
clear.sql 312 Bytes 704 about 23 years berkley added removal of relations
convert_denyFirst.sql 2.12 KB 7227 almost 12 years ben leinfelder script to aid in converting denyFirst rules to ...
delete-xml-documents.sql 937 Bytes 3123 over 17 years Jing Tao Add a script to delete documents manually.
delete-xml-revisions.sql 110 Bytes 3125 over 17 years Jing Tao Add a script can delete xml_revision records.
delete_all_by_pid.sql 4.1 KB 7392 over 11 years ben leinfelder shorten the systemmetadata* table names for Ora...
doi_registration.sql 27.9 KB 7416 over 11 years ben leinfelder update pub_date when the length of that field i...
drop-postgres.sql 2.24 KB 5956 about 13 years Matt Jones Updated DROP script that was missing tables and...
increase-xml-queryresult-size-postgres.sql 952 Bytes 3297 almost 17 years Jing Tao A sql to increase column size of queryresult_st...
loaddtd.sql 2.07 KB 4080 almost 16 years daigle Merge 1.9 changes into Head
loaddtdschema-oracle.sql 7.15 KB 8656 about 10 years ben leinfelder update to use 2.4.1 so the trunk has all artifa...
loaddtdschema-postgres.sql 7.15 KB 8656 about 10 years ben leinfelder update to use 2.4.1 so the trunk has all artifa...
loadschema.sql 395 Bytes 4080 almost 16 years daigle Merge 1.9 changes into Head
package-count.sql 373 Bytes 2283 over 19 years Matt Jones Added sql for counting packages.
rollback-db-from-1.9-oracle.sql 903 Bytes 4818 about 15 years daigle Add db rollback scripts
rollback-db-from-1.9-postgres.sql 465 Bytes 4818 about 15 years daigle Add db rollback scripts
showdoc.sql 340 Bytes 390 over 23 years Matt Jones Added new utility query to return all of the xm...
sqlcatlist.sql 253 Bytes 123 almost 24 years Matt Jones Modifying storage model to use DOM TEXT nodes
sqldoclist.sql 209 Bytes 531 over 23 years Matt Jones Changed utility query to include the user_owner...
sqlnodeslist.sql 94 Bytes 108 almost 24 years Matt Jones added utility files and queries
sqlnodesview.sql 358 Bytes 166 almost 24 years Matt Jones minor modifications to fix problems introduced ...
sqlrevisions.sql 205 Bytes 203 almost 24 years Matt Jones Merged in substantial changes to DBWriter and a...
system_metadata_revisions.sql 1.6 KB 8366 over 10 years ben leinfelder include update statement for marking newer revi...
tsvector.sql 788 Bytes 3751 about 16 years Jing Tao Add new code for xml_nodes table.
upgrade-db-to-1.2-oracle.sql 600 Bytes 4104 almost 16 years daigle replace <script>.sql files with <script>-oracle...
upgrade-db-to-1.2-postgres.sql 637 Bytes 4080 almost 16 years daigle Merge 1.9 changes into Head
upgrade-db-to-1.3-oracle.sql 1.44 KB 4104 almost 16 years daigle replace <script>.sql files with <script>-oracle...
upgrade-db-to-1.3-postgres.sql 2.56 KB 4080 almost 16 years daigle Merge 1.9 changes into Head
upgrade-db-to-1.4-oracle.sql 4.36 KB 4104 almost 16 years daigle replace <script>.sql files with <script>-oracle...
upgrade-db-to-1.4-postgres.sql 5.03 KB 4080 almost 16 years daigle Merge 1.9 changes into Head
upgrade-db-to-1.5-oracle.sql 5.9 KB 4413 over 15 years daigle Add nodedatanumerical column and associated pop...
upgrade-db-to-1.5-postgres.sql 5.65 KB 4080 almost 16 years daigle Merge 1.9 changes into Head
upgrade-db-to-1.6-oracle.sql 9.66 KB 4414 over 15 years daigle Re-add the xml_node id trigger. In oracle, thi...
upgrade-db-to-1.6-postgres.sql 7.66 KB 4080 almost 16 years daigle Merge 1.9 changes into Head
upgrade-db-to-1.7-oracle.sql 509 Bytes 4104 almost 16 years daigle replace <script>.sql files with <script>-oracle...
upgrade-db-to-1.7-postgres.sql 509 Bytes 3052 over 17 years Matt Jones Modifications to the table definitions to add i...
upgrade-db-to-1.8-oracle.sql 214 Bytes 4104 almost 16 years daigle replace <script>.sql files with <script>-oracle...
upgrade-db-to-1.8-postgres.sql 1.43 KB 3607 over 16 years Jing Tao A file rename from 1.7.1 since we decide to rel...
upgrade-db-to-1.9-oracle.sql 1.03 KB 4818 about 15 years daigle Add db rollback scripts
upgrade-db-to-1.9-postgres.sql 903 Bytes 4797 about 15 years daigle Add the service registration xml schema to the ...
upgrade-db-to-1.9.1-oracle.sql 127 Bytes 4873 about 15 years daigle Update version to 1.9.1. Add nrs ldap properti...
upgrade-db-to-1.9.1-postgres.sql 125 Bytes 4873 about 15 years daigle Update version to 1.9.1. Add nrs ldap properti...
upgrade-db-to-1.9.2-oracle.sql 1.62 KB 7035 about 12 years ben leinfelder fixed Oracle script issues identified by: Brian...
upgrade-db-to-1.9.2-postgres.sql 1.34 KB 5012 almost 15 years daigle Added end time to workflow scheduler.
upgrade-db-to-1.9.3-oracle.sql 127 Bytes 5507 over 13 years ben leinfelder add 1.9.3 upgrade scripts to trunk
upgrade-db-to-1.9.3-postgres.sql 125 Bytes 5507 over 13 years ben leinfelder add 1.9.3 upgrade scripts to trunk
upgrade-db-to-1.9.4-oracle.sql 127 Bytes 6209 almost 13 years ben leinfelder merge changes from 1.9.5 branch for upgrade pro...
upgrade-db-to-1.9.4-postgres.sql 125 Bytes 6209 almost 13 years ben leinfelder merge changes from 1.9.5 branch for upgrade pro...
upgrade-db-to-1.9.5-oracle.sql 195 Bytes 6209 almost 13 years ben leinfelder merge changes from 1.9.5 branch for upgrade pro...
upgrade-db-to-1.9.5-postgres.sql 194 Bytes 6209 almost 13 years ben leinfelder merge changes from 1.9.5 branch for upgrade pro...
upgrade-db-to-2.0.0-oracle.sql 8.21 KB 7392 over 11 years ben leinfelder shorten the systemmetadata* table names for Ora...
upgrade-db-to-2.0.0-postgres.sql 8.2 KB 7386 over 11 years ben leinfelder use correct column (guid) for temporary index
upgrade-db-to-2.0.1-oracle.sql 164 Bytes 7276 almost 12 years ben leinfelder update for 2.0.1 upgrade -- scripts, docs, readme
upgrade-db-to-2.0.1-postgres.sql 163 Bytes 7276 almost 12 years ben leinfelder update for 2.0.1 upgrade -- scripts, docs, readme
upgrade-db-to-2.0.2-oracle.sql 164 Bytes 7300 almost 12 years ben leinfelder prep for 2.0.2 release by updating the version ...
upgrade-db-to-2.0.2-postgres.sql 163 Bytes 7300 almost 12 years ben leinfelder prep for 2.0.2 release by updating the version ...
upgrade-db-to-2.0.3-oracle.sql 164 Bytes 7347 over 11 years ben leinfelder prep for 2.0.3 release
upgrade-db-to-2.0.3-postgres.sql 163 Bytes 7347 over 11 years ben leinfelder prep for 2.0.3 release
upgrade-db-to-2.0.4-oracle.sql 838 Bytes 7372 over 11 years ben leinfelder include missing identifier mappings during 2.0....
upgrade-db-to-2.0.4-postgres.sql 837 Bytes 7372 over 11 years ben leinfelder include missing identifier mappings during 2.0....
upgrade-db-to-2.0.5-oracle.sql 980 Bytes 7455 over 11 years ben leinfelder additional db indexes for pathquery performance...
upgrade-db-to-2.0.5-postgres.sql 830 Bytes 7455 over 11 years ben leinfelder additional db indexes for pathquery performance...
upgrade-db-to-2.0.6-oracle.sql 164 Bytes 7496 about 11 years ben leinfelder ready Metacat for 2.0.6 release (docs, db versi...
upgrade-db-to-2.0.6-postgres.sql 163 Bytes 7496 about 11 years ben leinfelder ready Metacat for 2.0.6 release (docs, db versi...
upgrade-db-to-2.0.7-oracle.sql 164 Bytes 7644 about 11 years ben leinfelder Use 2.0.7 version number in configuration/upgra...
upgrade-db-to-2.0.7-postgres.sql 163 Bytes 7644 about 11 years ben leinfelder Use 2.0.7 version number in configuration/upgra...
upgrade-db-to-2.0.8-oracle.sql 164 Bytes 7834 almost 11 years ben leinfelder merging upgrade scripts from 2.0 branch to trun...
upgrade-db-to-2.0.8-postgres.sql 163 Bytes 7834 almost 11 years ben leinfelder merging upgrade scripts from 2.0 branch to trun...
upgrade-db-to-2.1.0-oracle.sql 1.03 KB 8028 almost 11 years ben leinfelder type the doctype="metadata" objects as "FGDC-ST...
upgrade-db-to-2.1.0-postgres.sql 1.02 KB 8028 almost 11 years ben leinfelder type the doctype="metadata" objects as "FGDC-ST...
upgrade-db-to-2.1.1-oracle.sql 164 Bytes 8146 over 10 years ben leinfelder [merge from branch to keep trunk up to date wit...
upgrade-db-to-2.1.1-postgres.sql 163 Bytes 8146 over 10 years ben leinfelder [merge from branch to keep trunk up to date wit...
upgrade-db-to-2.2.0-oracle.sql 164 Bytes 8223 over 10 years ben leinfelder prep for 2.2.0 release. include configuration v...
upgrade-db-to-2.2.0-postgres.sql 163 Bytes 8223 over 10 years ben leinfelder prep for 2.2.0 release. include configuration v...
upgrade-db-to-2.2.1-oracle.sql 164 Bytes 8307 over 10 years ben leinfelder prep project for 2.2.1 patch release -- will al...
upgrade-db-to-2.2.1-postgres.sql 163 Bytes 8307 over 10 years ben leinfelder prep project for 2.2.1 patch release -- will al...
upgrade-db-to-2.3.0-oracle.sql 327 Bytes 8393 over 10 years ben leinfelder add indices for access log performance during u...
upgrade-db-to-2.3.0-postgres.sql 327 Bytes 8393 over 10 years ben leinfelder add indices for access log performance during u...
upgrade-db-to-2.3.1-oracle.sql 164 Bytes 8440 over 10 years ben leinfelder prep for 2.3.1 release
upgrade-db-to-2.3.1-postgres.sql 164 Bytes 8440 over 10 years ben leinfelder prep for 2.3.1 release
upgrade-db-to-2.4.0-oracle.sql 3.03 KB 8617 about 10 years Chris Jones Add in Darwin Core schema support into xml_cata...
upgrade-db-to-2.4.0-postgres.sql 5.77 KB 8642 about 10 years ben leinfelder merge recent upgrade changes from 2.4 branch
upgrade-db-to-2.4.1-oracle.sql 165 Bytes 8655 about 10 years ben leinfelder simple upgrade scripts for version 2.4.1
upgrade-db-to-2.4.1-postgres.sql 165 Bytes 8655 about 10 years ben leinfelder simple upgrade scripts for version 2.4.1
xmlpackage.sql 1.94 KB 439 over 23 years berkley sql file defining the table structure for eml-p...
xmltables-oracle.sql 25.2 KB 8335 over 10 years ben leinfelder add 2 indexes to speed up dataONE log retrieval...
xmltables-postgres.sql 22.3 KB 8335 over 10 years ben leinfelder add 2 indexes to speed up dataONE log retrieval...
xmltables-sqlserver.sql 12.2 KB 6012 about 13 years ben leinfelder add support for temporal element query in pathq...

Latest revisions

# Date Author Comment
8718 03/31/2014 11:11 AM ben leinfelder

attribute the datapackage to the creator (using orcid if we can find it). https://projects.ecoinformatics.org/ecoinfo/issues/6267
https://projects.ecoinformatics.org/ecoinfo/issues/6423
8717 03/31/2014 10:31 AM ben leinfelder

add test for BioPortal annotator service.
8716 03/28/2014 03:51 PM ben leinfelder

refactor web service calls to bioportal and orcid outside of the annotator class. test with orcid sandbox server. include orcid uri for the annotations being generated (we can index these and drive our searches on these values down the road). related to this: https://projects.ecoinformatics.org/ecoinfo/issues/6423 and also some semtools tasks.
8715 03/27/2014 04:54 PM ben leinfelder

remove leading '?' in the query parameter for MN.query() implementation. We want it to match CN behavior/expectations and comply with the DataONE specification for the interface. https://projects.ecoinformatics.org/ecoinfo/issues/6488
8714 03/26/2014 04:05 PM ben leinfelder

Use OBOE-SBC ontology for looking up concepts (it contains subclasses of our OBOE Characteristic and Standard superclasses). Restrict annotations to only subclasses that fit the OBOE model. Correct the xpointer and individual naming conventions so they are unique, but express the exact entity/attribute being annotated.
8713 03/26/2014 03:10 PM ben leinfelder

remove my api key. oops
8712 03/26/2014 03:02 PM ben leinfelder

add comment/pointer to BioPortal annotation service.
8711 03/26/2014 03:00 PM ben leinfelder

Include method to look up annotation classes from BioPortal. We still have OBOE-SBC in there, and theyhave the SWEET ontology. The suggestions returned are not perfect, but they can be better than nothing. Ideally, we'd only query a few ontologies so we don't end up using terms from medical ontologies that aren't really appropriate for our domain. https://projects.ecoinformatics.org/ecoinfo/issues/6256
8710 03/24/2014 04:17 PM ben leinfelder

Add xpointer FragmentSelectors to each annotation.
Split attribute label into tokens to attempt matching to OBOE concepts.
8709 03/23/2014 12:11 AM ben leinfelder

include code to generate random annotations for UI testing. Effective, but can be confusing to see so many unrelated concepts on duplicate EML packages.

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