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Rev Chgset Date Author Log Message
(edit) @570 [570] 12 days martijn Prevent NPE when calling Xref.getURL()
(edit) @569 [569] 2 weeks martijn DownGraded? Webservice Test failures to Warnings (by ChristianB)
(edit) @568 [568] 3 weeks martijn Small typo fix
(edit) @567 [567] 3 weeks martijn Merge pull request #3 from openphacts/Add_gitIgnore Added .gitignore
(edit) @566 [566] 3 weeks martijn Added OpenPhacts? team to readme.
(edit) @565 [565] 3 weeks martijn Added a Pom to construct
(edit) @564 [564] 3 weeks martijn Updated description of jar files in README
(edit) @563 [563] 3 weeks martijn Include rdb.construct in apidoc
(edit) @562 [562] 4 weeks martijn Preparing for 1.1.1 release
(edit) @561 [561] 4 weeks martijn Fixed mismatch between datasources.txt and BioDataSources?
(edit) @560 [560] 4 weeks martijn Updated DataSources?. Added Mirbase mature constant
(edit) @559 [559] 4 weeks martijn Fixed PICR webservice API mismatch glitches
(edit) @558 [558] 4 weeks martijn Fixed some .classpath files
(edit) @557 [557] 8 weeks AlexanderPico fixed typo
(edit) @556 [556] 2 months AlexanderPico added Series to Info table
(edit) @555 [555] 2 months AlexanderPico added Series to Info table
(edit) @554 [554] 2 months martijn QC on database capabilities
(edit) @553 [553] 2 months martijn Improve qc: check that ids match expected pattern
(edit) @552 [552] 2 months martijn Improved HDMB script: InChI keys and info properties
(edit) @551 [551] 2 months martijn Improve GdbConstruct? to allow setting of info props
(edit) @550 [550] 2 months martijn Adjusted dbbuilder to new pathvisio
(edit) @549 [549] 2 months martijn Deprecated pubchem, created pubchem compound and pubchem substance
(edit) @548 [548] 3 months AlexanderPico switched from $EnSpeciesCode? to En
(edit) @547 [547] 3 months AlexanderPico switched from EnXXXXXX to En
(edit) @546 [546] 3 months AlexanderPico updated GO namespace as Symbol
(edit) @545 [545] 4 months rodche The project version used by maven2 POMs is now 1.1.1-SNAPSHOT (the next …
(edit) @544 [544] 4 months rodche Changed to version 1.1.0 in all POMs
(edit) @543 [543] 5 months AlexanderPico updated gene wiki linkout
(edit) @542 [542] 5 months thomas added XrefIterator? interface and implemented for IDMapperRdb
(edit) @541 [541] 5 months thomas added script to extract bioconductor annotations to bridgedb IDMapperText …
(edit) @540 [540] 7 months AlexanderPico upped limit on start
(edit) @539 [539] 7 months AlexanderPico added yeast arrays
(edit) @538 [538] 7 months AlexanderPico additional tweaks to GO handling
(edit) @537 [537] 7 months AlexanderPico changed "Term" to "Description" for better bridgedb support
(edit) @536 [536] 7 months AlexanderPico fixed write to qc file
(edit) @535 [535] 7 months AlexanderPico removing goslim from derby, for now
(edit) @534 [534] 7 months AlexanderPico changed default for STD to "no"
(edit) @533 [533] 7 months AlexanderPico major overhaul to how array id are collected; other minor improvements, …
(edit) @532 [532] 7 months AlexanderPico new system for handling array id
(edit) @531 [531] 7 months AlexanderPico new system for handling array id
(edit) @530 [530] 7 months AlexanderPico updated gz of sql.dump
(edit) @529 [529] 7 months AlexanderPico updated qc call
(edit) @528 [528] 7 months AlexanderPico updated qc call
(edit) @527 [527] 7 months AlexanderPico added and ordered
(edit) @526 [526] 7 months AlexanderPico added black mold
(edit) @525 [525] 7 months AlexanderPico consolidated genomes download script
(edit) @524 [524] 7 months AlexanderPico consolidated genomes download script
(edit) @523 [523] 8 months martijn Update version no in bnd files
(edit) @522 [522] 8 months martijn Re-arranged libraries for OSGi
(edit) @521 [521] 8 months martijn Use bnd to generate OSGi headers. Merge common build file bits in …
(edit) @520 [520] 8 months AlexanderPico updated affy query url
(edit) @519 [519] 8 months martijn Allow concurrent modification of IDMapperStack; Thanks to Leon Mei from …
(edit) @518 [518] 9 months AlexanderPico giving goslim-bp unique code
(edit) @517 [517] 9 months AlexanderPico adapted to collect probes and probesets, skipping problematic …
(edit) @516 [516] 9 months martijn server: Default to searching for symbols
(edit) @515 [515] 9 months martijn Make gdb.config template more informative
(edit) @514 [514] 9 months martijn Include datasources xml file in jar
(edit) @513 [513] 9 months martijn Improvements to server config file: allow comments, allow specification of …
(edit) @512 [512] 9 months AlexanderPico fixed spacing around common names
(edit) @511 [511] 10 months mehlhorn The first test checkin
(edit) @510 [510] 11 months martijn Add support for converting MIRIAM URN to Xref
(edit) @509 [509] 11 months martijn Start defining aliases, using a new xml configuration format
(edit) @508 [508] 11 months martijn Backwards compatibility fix in org.bridgedb.server
(edit) @507 [507] 11 months martijn Fix classpath of o.b.server jar
(edit) @506 [506] 11 months martijn Backwards compatbility fix for changes to GdbProvider?
(edit) @505 [505] 11 months martijn o.b.server: Compilation fix in unit test
(edit) @504 [504] 11 months martijn Add transitive option to GdbProvider? and REST server, GdbProvider? now uses …
(edit) @502 [502] 12 months martijn Include o.b.gui in build process
(edit) @500 [500] 12 months martijn Updated version no.
(edit) @483 [483] 12 months martijn Created directory for external contributions
(edit) @482 [482] 12 months martijn New org.bridgedb.gui package to help with tool configuration
(edit) @481 [481] 12 months rodche Fixed the issue in the org.bridgedb.server module with the org.restlet …
(edit) @480 [480] 12 months martijn Fixed pom for synergizer
(edit) @479 [479] 12 months martijn Updated synergizer client, updated url to new server.
(edit) @478 [478] 12 months martijn Systemcode for reactome
(edit) @477 [477] 13 months martijn Remove unneeded .classpath entry
(edit) @475 [475] 13 months martijn Synced datasources.txt with MIRIAM resources
(edit) @474 [474] 13 months martijn Print port when starting server
(edit) @473 [473] 13 months martijn Alternative freeAttributeSearch method, Patch by Ferry
(edit) @472 [472] 13 months AlexanderPico noted Tb as species-specific
(edit) @471 [471] 13 months AlexanderPico fixed pattern
(edit) @470 [470] 13 months AlexanderPico added Tb and pattern
(edit) @469 [469] 13 months AlexanderPico added final compression line for distribution
(edit) @468 [468] 14 months AlexanderPico updating SGD_GENE collection for new Ensembl convention
(edit) @467 [467] 14 months AlexanderPico adapted to handle mixed conventions and optional funcgen
(edit) @466 [466] 14 months AlexanderPico added Name to Affy
(edit) @465 [465] 14 months AlexanderPico added qc testing of derby
(edit) @464 [464] 14 months AlexanderPico added qc testing of derby
(edit) @463 [463] 14 months AlexanderPico added parameters for greater extraction control and qc testing of derby
(edit) @462 [462] 14 months AlexanderPico added parameters for greater extraction control and qc testing of derby
(edit) @461 [461] 14 months AlexanderPico added pattern match for yeast orfs used by Ensembl
(edit) @460 [460] 14 months martijn separate HGNC identifier and HGNC Symbol
(edit) @459 [459] 14 months martijn Fix hardcoded value in attribute search, patch by Ferry.
(edit) @458 [458] 14 months thomas fixed HGNC url pattern
(edit) @457 [457] 14 months thomas replaced space with tab in datasources.txt
(edit) @456 [456] 14 months thomas - added WikiGenes? to datasources.txt - fixed wrong names for Gene Wiki and …
(edit) @455 [455] 15 months AlexanderPico added funcgen and genus_species flags
(edit) @454 [454] 15 months AlexanderPico customization for funcgen and plant oddities
(edit) @453 [453] 15 months AlexanderPico updated list
(edit) @452 [452] 15 months AlexanderPico updated path convention
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