initial commit: medco plus implementation
4bcf474b0457
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Authored by mickmis on Aug 4 2017, 17:30.

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initial commit: medco plus implementation

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mickmis

Aug 4 2017, 17:31

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mickmis

Aug 7 2017, 12:09

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mickmis committed R4434:4bcf474b0457: initial commit: medco plus implementation (authored by mickmis).Aug 4 2017, 17:31

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		Path
A		.gitignore
A		README.md
A		build.properties
A		build.xml
A		ch.epfl.lca1.medco.iml
A	(dir)	etc/
A	(dir)	etc/axis2/
A		etc/axis2/services.xml
A	(dir)	etc/jboss/
A		etc/jboss/medco-ds.xml
A	(dir)	etc/manifest/
A		etc/manifest/MANIFEST.MF
A	(dir)	etc/spring/
A	(dir)	etc/spring/medcoapp/
A		etc/spring/medcoapp/MedCoApplicationContext.xml
A		etc/spring/medcoapp/medco.properties
A	(dir)	etc/xsd_old/
A		etc/xsd_old/i2b2_medco.xsd
A		etc/xsd_old/i2b2_medco_bindings.xjb
A	(dir)	lib/
A	(dir)	lib/i2b2_core_libs/
A		lib/i2b2_core_libs/CRC-core.jar
A		lib/i2b2_core_libs/i2b2Common-core.jar
A	(dir)	lib/i2b2_ext_libs/
A		lib/i2b2_ext_libs/XmlSchema-1.4.7.jar
A		lib/i2b2_ext_libs/activation-1.1.jar
A		lib/i2b2_ext_libs/antlr-2.7.7.jar
A		lib/i2b2_ext_libs/axiom-api-1.2.12.jar
A		lib/i2b2_ext_libs/axiom-dom-1.2.12.jar
A		lib/i2b2_ext_libs/axiom-impl-1.2.12.jar
A		lib/i2b2_ext_libs/axis2-adb-1.6.1.jar
A		lib/i2b2_ext_libs/axis2-adb-codegen-1.6.1.jar
A		lib/i2b2_ext_libs/axis2-clustering-1.6.1.jar
A		lib/i2b2_ext_libs/axis2-codegen-1.6.1.jar
A		lib/i2b2_ext_libs/axis2-corba-1.6.1.jar
A		lib/i2b2_ext_libs/axis2-fastinfoset-1.6.1.jar
A		lib/i2b2_ext_libs/axis2-java2wsdl-1.6.1.jar
A		lib/i2b2_ext_libs/axis2-jaxbri-1.6.1.jar
A		lib/i2b2_ext_libs/axis2-jaxws-1.6.1.jar
A		lib/i2b2_ext_libs/axis2-jibx-1.6.1.jar
A		lib/i2b2_ext_libs/axis2-json-1.6.1.jar
A		lib/i2b2_ext_libs/axis2-kernel-1.6.1.jar
A		lib/i2b2_ext_libs/axis2-metadata-1.6.1.jar
A		lib/i2b2_ext_libs/axis2-mtompolicy-1.6.1.jar
A		lib/i2b2_ext_libs/axis2-saaj-1.6.1.jar
A		lib/i2b2_ext_libs/axis2-soapmonitor-servlet-1.6.1.jar
A		lib/i2b2_ext_libs/axis2-spring-1.6.1.jar
A		lib/i2b2_ext_libs/axis2-transport-http-1.6.1.jar
A		lib/i2b2_ext_libs/axis2-transport-local-1.6.1.jar
A		lib/i2b2_ext_libs/axis2-xmlbeans-1.6.1.jar
A		lib/i2b2_ext_libs/bcel-5.1.jar
A		lib/i2b2_ext_libs/commons-cli-1.2.jar
A		lib/i2b2_ext_libs/commons-codec-1.3.jar
A		lib/i2b2_ext_libs/commons-fileupload-1.2.jar
A		lib/i2b2_ext_libs/commons-httpclient-3.1.jar
A		lib/i2b2_ext_libs/commons-io-1.4.jar
A		lib/i2b2_ext_libs/commons-logging-1.0.4.jar
A		lib/i2b2_ext_libs/commons-logging-1.1.1.jar
A		lib/i2b2_ext_libs/geronimo-annotation_1.0_spec-1.1.jar
A		lib/i2b2_ext_libs/geronimo-jaxws_2.2_spec-1.0.jar
A		lib/i2b2_ext_libs/geronimo-jta_1.1_spec-1.1.jar
A		lib/i2b2_ext_libs/geronimo-saaj_1.3_spec-1.0.1.jar
A		lib/i2b2_ext_libs/geronimo-stax-api_1.0_spec-1.0.1.jar
A		lib/i2b2_ext_libs/geronimo-ws-metadata_2.0_spec-1.1.2.jar
A		lib/i2b2_ext_libs/httpcore-4.0.jar
A		lib/i2b2_ext_libs/jaxb-api-2.1.jar
A		lib/i2b2_ext_libs/jaxb-api.jar
A		lib/i2b2_ext_libs/jaxb-impl-2.1.7.jar
A		lib/i2b2_ext_libs/jaxb-impl.jar
A		lib/i2b2_ext_libs/jaxb-xjc-2.1.7.jar
A		lib/i2b2_ext_libs/jaxb-xjc.jar
A		lib/i2b2_ext_libs/jaxb1-impl.jar
A		lib/i2b2_ext_libs/jaxen-1.1.1.jar
A		lib/i2b2_ext_libs/jaxws-tools-2.1.3.jar
A		lib/i2b2_ext_libs/jdom.jar
A		lib/i2b2_ext_libs/jettison-1.0-RC2.jar
A		lib/i2b2_ext_libs/jibx-bind-1.2.jar
A		lib/i2b2_ext_libs/jibx-run-1.2.jar
A		lib/i2b2_ext_libs/jsr173_1.0_api.jar
A		lib/i2b2_ext_libs/jsr311-api-1.0.jar
A		lib/i2b2_ext_libs/juli-6.0.16.jar
A		lib/i2b2_ext_libs/junit-4.4.jar
A		lib/i2b2_ext_libs/log4j-1.2.15.jar
A		lib/i2b2_ext_libs/mail-1.4.jar
A		lib/i2b2_ext_libs/mex-1.6.1-impl.jar
A		lib/i2b2_ext_libs/neethi-3.0.1.jar
A		lib/i2b2_ext_libs/postgresql-9.4.1209.jar
A		lib/i2b2_ext_libs/regexp-1.2.jar
A		lib/i2b2_ext_libs/spring-2.0.jar
A		lib/i2b2_ext_libs/tribes-6.0.16.jar
A		lib/i2b2_ext_libs/woden-api-1.0M9.jar
A		lib/i2b2_ext_libs/woden-impl-commons-1.0M9.jar
A		lib/i2b2_ext_libs/woden-impl-dom-1.0M9.jar
A		lib/i2b2_ext_libs/wsdl4j-1.6.2.jar
A		lib/i2b2_ext_libs/wstx-asl-3.2.9.jar
A		lib/i2b2_ext_libs/xalan-2.7.0.jar
A		lib/i2b2_ext_libs/xml-resolver-1.2.jar
A		lib/i2b2_ext_libs/xmlbeans-2.3.0.jar
A	(dir)	lib/to_deploy/
A		lib/to_deploy/commons-cli-1.4.jar
A		lib/to_deploy/javatuples-1.2.jar
A		lib/to_deploy/minimal-json-0.9.4.jar
A		lib/to_deploy/opencsv-3.9.jar
A	(dir)	src/
A	(dir)	src/client/
A	(dir)	src/client/ch/
A	(dir)	src/client/ch/epfl/
A	(dir)	src/client/ch/epfl/lca1/
A	(dir)	src/client/ch/epfl/lca1/medco/
A		src/client/ch/epfl/lca1/medco/CustomServiceClient.java
A		src/client/ch/epfl/lca1/medco/DatasetsManipulations.java
A		src/client/ch/epfl/lca1/medco/I2B2MedCoCell.java
A		src/client/ch/epfl/lca1/medco/MedCoLoadingClient.java
A		src/client/ch/epfl/lca1/medco/MedCoQueryClient.java
A		src/client/ch/epfl/lca1/medco/Timers.java
A	(dir)	src/server/
A	(dir)	src/server/ch/
A	(dir)	src/server/ch/epfl/
A	(dir)	src/server/ch/epfl/lca1/
A	(dir)	src/server/ch/epfl/lca1/medco/
A		src/server/ch/epfl/lca1/medco/MedCoDataLoader.java
A		src/server/ch/epfl/lca1/medco/MedCoQuery.java
A	(dir)	src/server/ch/epfl/lca1/medco/axis2/
A		src/server/ch/epfl/lca1/medco/axis2/MedCoQueryRequestDelegate.java
A		src/server/ch/epfl/lca1/medco/axis2/MedCoQueryService.java
A		src/server/ch/epfl/lca1/medco/axis2/RequestHandlerDelegate.java
A	(dir)	src/server/ch/epfl/lca1/medco/dao/
A		src/server/ch/epfl/lca1/medco/dao/MedCoDatabase.java
A	(dir)	src/server/ch/epfl/lca1/medco/i2b2/
A		src/server/ch/epfl/lca1/medco/i2b2/I2B2Cell.java
A		src/server/ch/epfl/lca1/medco/i2b2/I2b2Status.java
A		src/server/ch/epfl/lca1/medco/i2b2/MessagesUtil.java
A	(dir)	src/server/ch/epfl/lca1/medco/i2b2/crc/
A		src/server/ch/epfl/lca1/medco/i2b2/crc/I2B2CRCCell.java
A		src/server/ch/epfl/lca1/medco/i2b2/crc/I2B2QueryRequest.java
A		src/server/ch/epfl/lca1/medco/i2b2/crc/I2B2QueryResponse.java
A		src/server/ch/epfl/lca1/medco/i2b2/crc/PatientDataObject.java
A	(dir)	src/server/ch/epfl/lca1/medco/i2b2/fr/
A		src/server/ch/epfl/lca1/medco/i2b2/fr/I2B2FRCell.java
A	(dir)	src/server/ch/epfl/lca1/medco/i2b2/ont/
A		src/server/ch/epfl/lca1/medco/i2b2/ont/I2B2ONTCell.java
A	(dir)	src/server/ch/epfl/lca1/medco/i2b2/pm/
A		src/server/ch/epfl/lca1/medco/i2b2/pm/I2B2PMCell.java
A		src/server/ch/epfl/lca1/medco/i2b2/pm/UserAuthentication.java
A	(dir)	src/server/ch/epfl/lca1/medco/loader/
A		src/server/ch/epfl/lca1/medco/loader/AbstractLoader.java
A		src/server/ch/epfl/lca1/medco/loader/DataType.java
A		src/server/ch/epfl/lca1/medco/loader/EncryptedIdentifiersManager.java
A	(dir)	src/server/ch/epfl/lca1/medco/loader/clinical/
A		src/server/ch/epfl/lca1/medco/loader/clinical/DataLoader.java
A		src/server/ch/epfl/lca1/medco/loader/clinical/OntologyLoader.java
A	(dir)	src/server/ch/epfl/lca1/medco/loader/genomic/
A		src/server/ch/epfl/lca1/medco/loader/genomic/GenomicLoader.java
A	(dir)	src/server/ch/epfl/lca1/medco/unlynx/
A		src/server/ch/epfl/lca1/medco/unlynx/UnlynxClient.java
A		src/server/ch/epfl/lca1/medco/unlynx/UnlynxDecrypt.java
A		src/server/ch/epfl/lca1/medco/unlynx/UnlynxEncrypt.java
A		src/server/ch/epfl/lca1/medco/unlynx/UnlynxQuery.java
A		src/server/ch/epfl/lca1/medco/unlynx/UnlynxQueryResult.java
A	(dir)	src/server/ch/epfl/lca1/medco/util/
A		src/server/ch/epfl/lca1/medco/util/Logger.java
A		src/server/ch/epfl/lca1/medco/util/MedCoUtil.java
A		src/server/ch/epfl/lca1/medco/util/StopWatch.java
A		src/server/ch/epfl/lca1/medco/util/XMLUtil.java
A	(dir)	src/server/ch/epfl/lca1/medco/util/exceptions/
A		src/server/ch/epfl/lca1/medco/util/exceptions/ConceptNotFoundException.java
A		src/server/ch/epfl/lca1/medco/util/exceptions/I2B2XMLException.java
A		src/server/ch/epfl/lca1/medco/util/exceptions/MedCoError.java
A		src/server/ch/epfl/lca1/medco/util/exceptions/MedCoException.java
A		src/server/ch/epfl/lca1/medco/util/exceptions/UnlynxException.java
A	(dir)	src/test/
A	(dir)	src/test/ch/
A	(dir)	src/test/ch/epfl/
A	(dir)	src/test/ch/epfl/lca1/
A	(dir)	src/test/ch/epfl/lca1/medco/
A		src/test/ch/epfl/lca1/medco/ConfiguredTests.java
A		src/test/ch/epfl/lca1/medco/MedCoTests.java
A		src/test/ch/epfl/lca1/medco/Sandbox.java
A	(dir)	src/test/ch/epfl/lca1/medco/dao/
A		src/test/ch/epfl/lca1/medco/dao/DaoTests.java
A	(dir)	src/test/ch/epfl/lca1/medco/i2b2/
A		src/test/ch/epfl/lca1/medco/i2b2/I2b2CellsTests.java
A	(dir)	src/test/ch/epfl/lca1/medco/loader/
A		src/test/ch/epfl/lca1/medco/loader/EncryptedIdsUnlynxTests.java
A		src/test/ch/epfl/lca1/medco/loader/MedCoDataLoaderTests.java
A	(dir)	src/test/ch/epfl/lca1/medco/unlynx/
A		src/test/ch/epfl/lca1/medco/unlynx/UnlynxTests.java
A	(dir)	src/test/ch/epfl/lca1/medco/util/
A		src/test/ch/epfl/lca1/medco/util/LoggerTest.java