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Changing version to 1.0.0 for release
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@imedina
imedina committed Mar 17, 2017
1 parent 0e30bb2 commit fd056d2
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Showing 19 changed files with 29 additions and 29 deletions.
2 changes: 1 addition & 1 deletion opencga-analysis/pom.xml
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<parent>
<groupId>org.opencb.opencga</groupId>
<artifactId>opencga</artifactId>
<version>1.0.0-final</version>
<version>1.0.0</version>
<relativePath>..</relativePath>
</parent>

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2 changes: 1 addition & 1 deletion opencga-app/pom.xml
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Expand Up @@ -22,7 +22,7 @@
<parent>
<groupId>org.opencb.opencga</groupId>
<artifactId>opencga</artifactId>
<version>1.0.0-final</version>
<version>1.0.0</version>
<relativePath>../pom.xml</relativePath>
</parent>

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2 changes: 1 addition & 1 deletion opencga-catalog/pom.xml
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Expand Up @@ -22,7 +22,7 @@
<parent>
<groupId>org.opencb.opencga</groupId>
<artifactId>opencga</artifactId>
<version>1.0.0-final</version>
<version>1.0.0</version>
<relativePath>../pom.xml</relativePath>
</parent>

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2 changes: 1 addition & 1 deletion opencga-client/pom.xml
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Expand Up @@ -22,7 +22,7 @@
<parent>
<groupId>org.opencb.opencga</groupId>
<artifactId>opencga</artifactId>
<version>1.0.0-final</version>
<version>1.0.0</version>
<relativePath>../pom.xml</relativePath>
</parent>

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2 changes: 1 addition & 1 deletion opencga-core/pom.xml
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Expand Up @@ -22,7 +22,7 @@
<parent>
<groupId>org.opencb.opencga</groupId>
<artifactId>opencga</artifactId>
<version>1.0.0-final</version>
<version>1.0.0</version>
<relativePath>../pom.xml</relativePath>
</parent>

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2 changes: 1 addition & 1 deletion opencga-server/pom.xml
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Expand Up @@ -22,7 +22,7 @@
<parent>
<groupId>org.opencb.opencga</groupId>
<artifactId>opencga</artifactId>
<version>1.0.0-final</version>
<version>1.0.0</version>
<relativePath>../pom.xml</relativePath>
</parent>

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2 changes: 1 addition & 1 deletion opencga-storage/opencga-storage-app/pom.xml
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Expand Up @@ -22,7 +22,7 @@
<parent>
<groupId>org.opencb.opencga</groupId>
<artifactId>opencga-storage</artifactId>
<version>1.0.0-final</version>
<version>1.0.0</version>
<relativePath>../pom.xml</relativePath>
</parent>

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2 changes: 1 addition & 1 deletion opencga-storage/opencga-storage-core/pom.xml
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Expand Up @@ -22,7 +22,7 @@
<parent>
<groupId>org.opencb.opencga</groupId>
<artifactId>opencga-storage</artifactId>
<version>1.0.0-final</version>
<version>1.0.0</version>
<relativePath>../pom.xml</relativePath>
</parent>

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2 changes: 1 addition & 1 deletion ...encb/opencga/storage/core/variant/annotation/annotators/CellBaseRestVariantAnnotator.java
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Expand Up @@ -37,7 +37,7 @@ public CellBaseRestVariantAnnotator(StorageConfiguration storageConfiguration, O
ClientConfiguration clientConfiguration = storageConfiguration.getCellbase().toClientConfiguration();
clientConfiguration.getRest().setTimeout(TIMEOUT);
CellBaseClient cellBaseClient;
cellBaseClient = new CellBaseClient(species, assembly, clientConfiguration);
cellBaseClient = new CellBaseClient(species, clientConfiguration);
this.cellBaseClient = cellBaseClient;

logger.info("Annotating with Cellbase REST. host '{}', version '{}', species '{}', assembly '{}'",
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2 changes: 1 addition & 1 deletion opencga-storage/opencga-storage-hadoop/opencga-storage-hadoop-core/pom.xml
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Expand Up @@ -6,7 +6,7 @@
<parent>
<groupId>org.opencb.opencga</groupId>
<artifactId>opencga-storage-hadoop</artifactId>
<version>1.0.0-final</version>
<version>1.0.0</version>
<relativePath>../pom.xml</relativePath>
</parent>

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2 changes: 1 addition & 1 deletion .../main/java/org/opencb/opencga/storage/hadoop/variant/adaptors/VariantHadoopDBAdaptor.java
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Expand Up @@ -120,7 +120,7 @@ public VariantHadoopDBAdaptor(Connection connection, HBaseCredentials credential
if (StringUtils.isEmpty(species)) {
species = clientConfiguration.getDefaultSpecies();
}
cellBaseClient = new CellBaseClient(AbstractCellBaseVariantAnnotator.toCellBaseSpeciesName(species), assembly, clientConfiguration);
cellBaseClient = new CellBaseClient(AbstractCellBaseVariantAnnotator.toCellBaseSpeciesName(species), clientConfiguration);

clientSideSkip = !options.getBoolean(PhoenixHelper.PHOENIX_SERVER_OFFSET_AVAILABLE, true);
this.queryParser = new VariantSqlQueryParser(genomeHelper, this.variantTable, new VariantDBAdaptorUtils(this),
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4 changes: 2 additions & 2 deletions opencga-storage/opencga-storage-hadoop/opencga-storage-hadoop-deps/pom.xml
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Expand Up @@ -50,13 +50,13 @@
<parent>
<groupId>org.opencb.opencga</groupId>
<artifactId>opencga-storage-hadoop</artifactId>
<version>1.0.0-final</version>
<version>1.0.0</version>
<!--<relativePath>../pom.xml</relativePath>-->
</parent>

<!--<groupId>org.opencb.opencga</groupId>-->
<artifactId>opencga-storage-hadoop-deps</artifactId>
<version>1.0.0-final-SNAPSHOT</version>
<version>1.0.0</version>

<properties>
<checkstyle.skip>true</checkstyle.skip>
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8 changes: 4 additions & 4 deletions opencga-storage/opencga-storage-hadoop/pom.xml
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Expand Up @@ -20,17 +20,17 @@
xsi:schemaLocation="http://maven.apache.org/POM/4.0.0 http://maven.apache.org/xsd/maven-4.0.0.xsd">
<modelVersion>4.0.0</modelVersion>
<properties>
<opencga-storage-hadoop-deps.version>${opencga.version}-SNAPSHOT</opencga-storage-hadoop-deps.version>
<opencga-storage-hadoop-deps.version>${opencga.version}</opencga-storage-hadoop-deps.version>
</properties>
<parent>
<groupId>org.opencb.opencga</groupId>
<artifactId>opencga-storage</artifactId>
<version>1.0.0-final</version>
<version>1.0.0</version>
<relativePath>../pom.xml</relativePath>
</parent>

<artifactId>opencga-storage-hadoop</artifactId>
<version>1.0.0-final</version>
<version>1.0.0</version>
<packaging>pom</packaging>

<modules>
Expand All @@ -43,7 +43,7 @@
<id>opencga-storage-hadoop-deps</id>
<activation>
<file>
<missing>${user.home}/.m2/repository/org/opencb/opencga/opencga-storage-hadoop-deps/1.0.0-final-SNAPSHOT/opencga-storage-hadoop-deps-1.0.0-final-SNAPSHOT.jar</missing>
<missing>${user.home}/.m2/repository/org/opencb/opencga/opencga-storage-hadoop-deps/1.0.0/opencga-storage-hadoop-deps-1.0.0.jar</missing>
</file>
</activation>
<modules>
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2 changes: 1 addition & 1 deletion opencga-storage/opencga-storage-mongodb/pom.xml
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Expand Up @@ -22,7 +22,7 @@
<parent>
<groupId>org.opencb.opencga</groupId>
<artifactId>opencga-storage</artifactId>
<version>1.0.0-final</version>
<version>1.0.0</version>
<relativePath>../pom.xml</relativePath>
</parent>

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2 changes: 1 addition & 1 deletion .../main/java/org/opencb/opencga/storage/mongodb/variant/adaptors/VariantMongoDBAdaptor.java
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Expand Up @@ -163,7 +163,7 @@ public VariantMongoDBAdaptor(MongoDataStoreManager mongoManager, MongoCredential
if (StringUtils.isEmpty(species)) {
species = clientConfiguration.getDefaultSpecies();
}
cellBaseClient = new CellBaseClient(AbstractCellBaseVariantAnnotator.toCellBaseSpeciesName(species), assembly, clientConfiguration);
cellBaseClient = new CellBaseClient(AbstractCellBaseVariantAnnotator.toCellBaseSpeciesName(species), clientConfiguration);
this.cacheManager = new CacheManager(storageConfiguration);
this.variantSearchManager = new VariantSearchManager(utils, storageConfiguration);
NUMBER_INSTANCES.incrementAndGet();
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2 changes: 1 addition & 1 deletion opencga-storage/opencga-storage-server/pom.xml
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Expand Up @@ -22,7 +22,7 @@
<parent>
<groupId>org.opencb.opencga</groupId>
<artifactId>opencga-storage</artifactId>
<version>1.0.0-final</version>
<version>1.0.0</version>
<relativePath>../pom.xml</relativePath>
</parent>

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4 changes: 2 additions & 2 deletions opencga-storage/pom.xml
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Expand Up @@ -22,13 +22,13 @@
<parent>
<groupId>org.opencb.opencga</groupId>
<artifactId>opencga</artifactId>
<version>1.0.0-final</version>
<version>1.0.0</version>
<relativePath>../pom.xml</relativePath>
</parent>

<!-- Version must be set to a literal, variables cannot be used in nested modules -->
<artifactId>opencga-storage</artifactId>
<version>1.0.0-final</version>
<version>1.0.0</version>
<packaging>pom</packaging>

<properties>
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2 changes: 1 addition & 1 deletion opencga-test/pom.xml
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Expand Up @@ -22,7 +22,7 @@

<groupId>org.opencb.opencga</groupId>
<artifactId>opencga-test</artifactId>
<version>1.0.0-final</version>
<version>1.0.0</version>
<packaging>pom</packaging>

<dependencies>
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12 changes: 6 additions & 6 deletions pom.xml
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<groupId>org.opencb.opencga</groupId>
<artifactId>opencga</artifactId>
<version>1.0.0-final</version>
<version>1.0.0</version>
<packaging>pom</packaging>

<modules>
Expand All @@ -36,12 +36,12 @@
</modules>

<properties>
<opencga.version>1.0.0-final</opencga.version>
<opencga.version>1.0.0</opencga.version>
<java.version>1.8</java.version>
<biodata.version>1.0.0-SNAPSHOT</biodata.version>
<cellbase.version>4.5.0-SNAPSHOT</cellbase.version>
<java-common-libs.version>3.4.1-SNAPSHOT</java-common-libs.version>
<hpg-bigdata.version>1.0.0-beta2-SNAPSHOT</hpg-bigdata.version>
<biodata.version>1.0.0</biodata.version>
<cellbase.version>4.5.0-rc.1</cellbase.version>
<java-common-libs.version>3.4.1</java-common-libs.version>
<hpg-bigdata.version>1.0.0-beta1</hpg-bigdata.version>
<jackson.version>2.6.6</jackson.version>
<jersey.version>2.23</jersey.version>
<hadoop.version>2.7.1</hadoop.version>
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