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prepare release version 3.1.0
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jenkins committed Oct 10, 2013
1 parent f129146 commit 01832d1
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Showing 74 changed files with 153 additions and 153 deletions.
6 changes: 3 additions & 3 deletions org.caleydo.core/META-INF/MANIFEST.MF
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Expand Up @@ -2,7 +2,7 @@ Manifest-Version: 1.0
Bundle-ManifestVersion: 2
Bundle-Name: Caleydo Core Plug-in
Bundle-SymbolicName: org.caleydo.core;singleton:=true
Bundle-Version: 3.1.1.qualifier
Bundle-Version: 3.1.0
Export-Package: org.caleydo.core.data.collection,
org.caleydo.core.data.collection.column;
uses:="org.caleydo.core.data.collection,
Expand Down Expand Up @@ -371,8 +371,8 @@ Export-Package: org.caleydo.core.data.collection,
org.caleydo.core.view.opengl.util.vislink;uses:="javax.media.opengl,gleem.linalg",
org.caleydo.core.view.swt;uses:="org.caleydo.core.event,org.caleydo.core.view,org.eclipse.swt.widgets"
Require-Bundle: org.eclipse.core.runtime;bundle-version="3.9.0";visibility:=reexport,
org.caleydo.data;bundle-version="3.1.1.qualifier";visibility:=reexport,
org.caleydo.util.gleem;bundle-version="3.1.1.qualifier";visibility:=reexport,
org.caleydo.data;bundle-version="3.1.0";visibility:=reexport,
org.caleydo.util.gleem;bundle-version="3.1.0";visibility:=reexport,
org.eclipse.e4.ui.model.workbench;bundle-version="1.0.1",
org.eclipse.ui;bundle-version="3.105.0";visibility:=reexport,
com.google.guava;bundle-version="12.0.0";visibility:=reexport,
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2 changes: 1 addition & 1 deletion org.caleydo.core/OSGI-INF/l10n/bundle.properties
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Expand Up @@ -3,7 +3,7 @@ appName=Caleydo
aboutText = Caleydo - Visualization for Molecular Biology\n\
http://caleydo.org\n\
\n\
Version: 3.1.1.qualifier\n\
Version: 3.1.0\n\
\n\
Copyright 2008 - 2013 by the Caleydo Team.\n\
\n\
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2 changes: 1 addition & 1 deletion org.caleydo.core/filtered/version.properties
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@@ -1,4 +1,4 @@
#the version of the manifest
caleydo.version=3.1.1.qualifier
caleydo.version=3.1.0
#the version of maven injected by maven
caleydo.version.maven=${project.version}
2 changes: 1 addition & 1 deletion org.caleydo.core/pom.xml
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Expand Up @@ -5,7 +5,7 @@
<parent>
<groupId>org.caleydo</groupId>
<artifactId>org.caleydo.parent</artifactId>
<version>3.1.1-SNAPSHOT</version>
<version>3.1.0</version>
<relativePath>../org.caleydo.parent</relativePath>
</parent>
<artifactId>org.caleydo.core</artifactId>
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12 changes: 6 additions & 6 deletions org.caleydo.data.importer/META-INF/MANIFEST.MF
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Expand Up @@ -2,21 +2,21 @@ Manifest-Version: 1.0
Bundle-ManifestVersion: 2
Bundle-Name: Caleydo Data Importer
Bundle-SymbolicName: org.caleydo.data.importer;singleton:=true
Bundle-Version: 3.1.1.qualifier
Bundle-Version: 3.1.0
Export-Package:
org.caleydo.data.importer;uses:="org.eclipse.core.runtime,org.eclipse.equinox.app,org.osgi.framework",
org.caleydo.data.importer.jkubioinfo,
org.caleydo.data.importer.tcga
Bundle-RequiredExecutionEnvironment: JavaSE-1.7
Bundle-ActivationPolicy: lazy
Bundle-Vendor: www.caleydo.org
Require-Bundle: org.caleydo.core;bundle-version="3.1.1.qualifier",
org.caleydo.datadomain.generic;bundle-version="3.1.1.qualifier",
org.caleydo.datadomain.genetic;bundle-version="3.1.1.qualifier",
org.caleydo.datadomain.pathway;bundle-version="3.1.1.qualifier",
Require-Bundle: org.caleydo.core;bundle-version="3.1.0",
org.caleydo.datadomain.generic;bundle-version="3.1.0",
org.caleydo.datadomain.genetic;bundle-version="3.1.0",
org.caleydo.datadomain.pathway;bundle-version="3.1.0",
com.google.gson;bundle-version="2.1.0",
org.apache.commons.compress;bundle-version="1.4.1",
org.caleydo.view.tourguide;bundle-version="3.1.1.qualifier",
org.caleydo.view.tourguide;bundle-version="3.1.0",
com.google.guava
Bundle-Activator: org.caleydo.data.importer.Activator
Import-Package: org.caleydo.vis.lineup.model.mapping
2 changes: 1 addition & 1 deletion org.caleydo.data.importer/pom.xml
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Expand Up @@ -5,7 +5,7 @@
<parent>
<groupId>org.caleydo</groupId>
<artifactId>org.caleydo.parent</artifactId>
<version>3.1.1-SNAPSHOT</version>
<version>3.1.0</version>
<relativePath>../org.caleydo.parent</relativePath>
</parent>
<artifactId>org.caleydo.data.importer</artifactId>
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6 changes: 3 additions & 3 deletions org.caleydo.data.pathway.kegg/META-INF/MANIFEST.MF
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Expand Up @@ -2,10 +2,10 @@ Manifest-Version: 1.0
Bundle-ManifestVersion: 2
Bundle-Name: KEGG Pathways
Bundle-SymbolicName: org.caleydo.data.pathway.kegg;singleton:=true
Bundle-Version: 3.1.1.qualifier
Bundle-Version: 3.1.0
Bundle-Activator: org.caleydo.data.pathway.kegg.Activator
Require-Bundle: org.caleydo.core;bundle-version="3.1.1.qualifier",
org.caleydo.datadomain.pathway;bundle-version="3.1.1.qualifier"
Require-Bundle: org.caleydo.core;bundle-version="3.1.0",
org.caleydo.datadomain.pathway;bundle-version="3.1.0"
Bundle-ActivationPolicy: lazy
Bundle-RequiredExecutionEnvironment: JavaSE-1.7
Bundle-Vendor: www.genome.jp/kegg
2 changes: 1 addition & 1 deletion org.caleydo.data.pathway.kegg/pom.xml
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Expand Up @@ -5,7 +5,7 @@
<parent>
<groupId>org.caleydo</groupId>
<artifactId>org.caleydo.parent</artifactId>
<version>3.1.1-SNAPSHOT</version>
<version>3.1.0</version>
<relativePath>../org.caleydo.parent</relativePath>
</parent>
<artifactId>org.caleydo.data.pathway.kegg</artifactId>
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10 changes: 5 additions & 5 deletions org.caleydo.data.pathway.wikipathways/META-INF/MANIFEST.MF
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Expand Up @@ -2,12 +2,12 @@ Manifest-Version: 1.0
Bundle-ManifestVersion: 2
Bundle-Name: Wikipathways
Bundle-SymbolicName: org.caleydo.data.pathway.wikipathways;singleton:=true
Bundle-Version: 3.1.1.qualifier
Bundle-Version: 3.1.0
Bundle-Activator: org.caleydo.data.pathway.wikipathways.Activator
Require-Bundle: org.caleydo.core;bundle-version="3.1.1.qualifier",
org.caleydo.datadomain.pathway;bundle-version="3.1.1.qualifier",
org.caleydo.datadomain.generic;bundle-version="3.1.1.qualifier",
org.caleydo.datadomain.genetic;bundle-version="3.1.1.qualifier",
Require-Bundle: org.caleydo.core;bundle-version="3.1.0",
org.caleydo.datadomain.pathway;bundle-version="3.1.0",
org.caleydo.datadomain.generic;bundle-version="3.1.0",
org.caleydo.datadomain.genetic;bundle-version="3.1.0",
org.caleydo.thirdparty.pathvisio;bundle-version="31.0.0"
Bundle-ActivationPolicy: lazy
Bundle-RequiredExecutionEnvironment: JavaSE-1.7
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2 changes: 1 addition & 1 deletion org.caleydo.data.pathway.wikipathways/pom.xml
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Expand Up @@ -5,7 +5,7 @@
<parent>
<groupId>org.caleydo</groupId>
<artifactId>org.caleydo.parent</artifactId>
<version>3.1.1-SNAPSHOT</version>
<version>3.1.0</version>
<relativePath>../org.caleydo.parent</relativePath>
</parent>
<artifactId>org.caleydo.data.pathway.wikipathways</artifactId>
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4 changes: 2 additions & 2 deletions org.caleydo.data.tcga/META-INF/MANIFEST.MF
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Expand Up @@ -2,10 +2,10 @@ Manifest-Version: 1.0
Bundle-ManifestVersion: 2
Bundle-Name: TCGA
Bundle-SymbolicName: org.caleydo.data.tcga;singleton:=true
Bundle-Version: 3.1.1.qualifier
Bundle-Version: 3.1.0
Bundle-Activator: org.caleydo.data.tcga.internal.Activator
Require-Bundle: org.eclipse.core.runtime,
org.caleydo.core;bundle-version="3.1.1.qualifier",
org.caleydo.core;bundle-version="3.1.0",
com.google.gson;bundle-version="2.1.0"
Bundle-ActivationPolicy: lazy
Bundle-RequiredExecutionEnvironment: JavaSE-1.7
2 changes: 1 addition & 1 deletion org.caleydo.data.tcga/pom.xml
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Expand Up @@ -5,7 +5,7 @@
<parent>
<groupId>org.caleydo</groupId>
<artifactId>org.caleydo.parent</artifactId>
<version>3.1.1-SNAPSHOT</version>
<version>3.1.0</version>
<relativePath>../org.caleydo.parent</relativePath>
</parent>
<artifactId>org.caleydo.data.tcga</artifactId>
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2 changes: 1 addition & 1 deletion org.caleydo.data/META-INF/MANIFEST.MF
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Expand Up @@ -2,7 +2,7 @@ Manifest-Version: 1.0
Bundle-ManifestVersion: 2
Bundle-Name: Caleydo Resources
Bundle-SymbolicName: org.caleydo.data;singleton:=true
Bundle-Version: 3.1.1.qualifier
Bundle-Version: 3.1.0
Bundle-Vendor: www.caleydo.org
Require-Bundle: org.eclipse.rcp;bundle-version="4.3.0",
org.eclipse.core.runtime;bundle-version="3.9.0",
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2 changes: 1 addition & 1 deletion org.caleydo.data/pom.xml
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Expand Up @@ -5,7 +5,7 @@
<parent>
<groupId>org.caleydo</groupId>
<artifactId>org.caleydo.parent</artifactId>
<version>3.1.1-SNAPSHOT</version>
<version>3.1.0</version>
<relativePath>../org.caleydo.parent</relativePath>
</parent>
<artifactId>org.caleydo.data</artifactId>
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4 changes: 2 additions & 2 deletions org.caleydo.datadomain.generic/META-INF/MANIFEST.MF
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Expand Up @@ -2,8 +2,8 @@ Manifest-Version: 1.0
Bundle-ManifestVersion: 2
Bundle-Name: Generic Data Domain
Bundle-SymbolicName: org.caleydo.datadomain.generic;singleton:=true
Bundle-Version: 3.1.1.qualifier
Require-Bundle: org.caleydo.core;bundle-version="3.1.1.qualifier"
Bundle-Version: 3.1.0
Require-Bundle: org.caleydo.core;bundle-version="3.1.0"
Bundle-ActivationPolicy: lazy
Bundle-RequiredExecutionEnvironment: JavaSE-1.7
Bundle-Vendor: www.caleydo.org
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2 changes: 1 addition & 1 deletion org.caleydo.datadomain.generic/pom.xml
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Expand Up @@ -5,7 +5,7 @@
<parent>
<groupId>org.caleydo</groupId>
<artifactId>org.caleydo.parent</artifactId>
<version>3.1.1-SNAPSHOT</version>
<version>3.1.0</version>
<relativePath>../org.caleydo.parent</relativePath>
</parent>
<artifactId>org.caleydo.datadomain.generic</artifactId>
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4 changes: 2 additions & 2 deletions org.caleydo.datadomain.genetic/META-INF/MANIFEST.MF
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Expand Up @@ -2,9 +2,9 @@ Manifest-Version: 1.0
Bundle-ManifestVersion: 2
Bundle-Name: Genetic Data Domain
Bundle-SymbolicName: org.caleydo.datadomain.genetic;singleton:=true
Bundle-Version: 3.1.1.qualifier
Bundle-Version: 3.1.0
Bundle-Vendor: www.caleydo.org
Require-Bundle: org.caleydo.core;bundle-version="3.1.1.qualifier"
Require-Bundle: org.caleydo.core;bundle-version="3.1.0"
Bundle-RequiredExecutionEnvironment: JavaSE-1.7
Export-Package: org.caleydo.datadomain.genetic
Bundle-ActivationPolicy: lazy
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2 changes: 1 addition & 1 deletion org.caleydo.datadomain.genetic/pom.xml
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Expand Up @@ -5,7 +5,7 @@
<parent>
<groupId>org.caleydo</groupId>
<artifactId>org.caleydo.parent</artifactId>
<version>3.1.1-SNAPSHOT</version>
<version>3.1.0</version>
<relativePath>../org.caleydo.parent</relativePath>
</parent>
<artifactId>org.caleydo.datadomain.genetic</artifactId>
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6 changes: 3 additions & 3 deletions org.caleydo.datadomain.pathway/META-INF/MANIFEST.MF
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Expand Up @@ -2,11 +2,11 @@ Manifest-Version: 1.0
Bundle-ManifestVersion: 2
Bundle-Name: Pathway Data Domain
Bundle-SymbolicName: org.caleydo.datadomain.pathway;singleton:=true
Bundle-Version: 3.1.1.qualifier
Bundle-Version: 3.1.0
Bundle-Activator: org.caleydo.datadomain.pathway.Activator
Bundle-Vendor: www.caleydo.org
Require-Bundle: org.caleydo.core;bundle-version="3.1.1.qualifier",
org.caleydo.datadomain.genetic;bundle-version="3.1.1.qualifier"
Require-Bundle: org.caleydo.core;bundle-version="3.1.0",
org.caleydo.datadomain.genetic;bundle-version="3.1.0"
Bundle-RequiredExecutionEnvironment: JavaSE-1.7
Bundle-ActivationPolicy: lazy
Export-Package: org.caleydo.datadomain.pathway,
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2 changes: 1 addition & 1 deletion org.caleydo.datadomain.pathway/pom.xml
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Expand Up @@ -5,7 +5,7 @@
<parent>
<groupId>org.caleydo</groupId>
<artifactId>org.caleydo.parent</artifactId>
<version>3.1.1-SNAPSHOT</version>
<version>3.1.0</version>
<relativePath>../org.caleydo.parent</relativePath>
</parent>
<artifactId>org.caleydo.datadomain.pathway</artifactId>
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2 changes: 1 addition & 1 deletion org.caleydo.internal/pom.xml
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Expand Up @@ -5,7 +5,7 @@
<parent>
<groupId>org.caleydo</groupId>
<artifactId>org.caleydo.parent</artifactId>
<version>3.1.1-SNAPSHOT</version>
<version>3.1.0</version>
<relativePath>../org.caleydo.parent</relativePath>
</parent>
<artifactId>org.caleydo.internal</artifactId>
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2 changes: 1 addition & 1 deletion org.caleydo.parent/pom.xml
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Expand Up @@ -4,7 +4,7 @@
<modelVersion>4.0.0</modelVersion>
<groupId>org.caleydo</groupId>
<artifactId>org.caleydo.parent</artifactId>
<version>3.1.1-SNAPSHOT</version>
<version>3.1.0</version>
<packaging>pom</packaging>
<url>https://github.com/Caleydo/caleydo</url>

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4 changes: 2 additions & 2 deletions org.caleydo.util.bubblesets/META-INF/MANIFEST.MF
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Expand Up @@ -2,11 +2,11 @@ Manifest-Version: 1.0
Bundle-ManifestVersion: 2
Bundle-Name: Bubblesets
Bundle-SymbolicName: org.caleydo.util.bubblesets
Bundle-Version: 3.1.1.qualifier
Bundle-Version: 3.1.0
Bundle-RequiredExecutionEnvironment: JavaSE-1.7
Export-Package: setvis,
setvis.bubbleset,
setvis.ch,
setvis.gui,
setvis.shape
Require-Bundle: org.caleydo.core;bundle-version="3.1.1.qualifier"
Require-Bundle: org.caleydo.core;bundle-version="3.1.0"
2 changes: 1 addition & 1 deletion org.caleydo.util.bubblesets/pom.xml
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Expand Up @@ -5,7 +5,7 @@
<parent>
<groupId>org.caleydo</groupId>
<artifactId>org.caleydo.parent</artifactId>
<version>3.1.1-SNAPSHOT</version>
<version>3.1.0</version>
<relativePath>../org.caleydo.parent</relativePath>
</parent>
<artifactId>org.caleydo.util.bubblesets</artifactId>
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2 changes: 1 addition & 1 deletion org.caleydo.util.gleem/META-INF/MANIFEST.MF
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Expand Up @@ -2,7 +2,7 @@ Manifest-Version: 1.0
Bundle-ManifestVersion: 2
Bundle-Name: Gleem Plug-in
Bundle-SymbolicName: org.caleydo.util.gleem;singleton:=true
Bundle-Version: 3.1.1.qualifier
Bundle-Version: 3.1.0
Export-Package: gleem,
gleem.linalg,
gleem.linalg.open
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2 changes: 1 addition & 1 deletion org.caleydo.util.gleem/pom.xml
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Expand Up @@ -5,7 +5,7 @@
<parent>
<groupId>org.caleydo</groupId>
<artifactId>org.caleydo.parent</artifactId>
<version>3.1.1-SNAPSHOT</version>
<version>3.1.0</version>
<relativePath>../org.caleydo.parent</relativePath>
</parent>
<artifactId>org.caleydo.util.gleem</artifactId>
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6 changes: 3 additions & 3 deletions org.caleydo.util.r/META-INF/MANIFEST.MF
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Expand Up @@ -2,7 +2,7 @@ Manifest-Version: 1.0
Bundle-ManifestVersion: 2
Bundle-Name: R Statistics Plug-in
Bundle-SymbolicName: org.caleydo.util.r;singleton:=true
Bundle-Version: 3.1.1.qualifier
Bundle-Version: 3.1.0
Bundle-NativeCode:
lib/linux/x86/libjri.so;
osname=linux;
Expand Down Expand Up @@ -31,8 +31,8 @@ Bundle-Vendor: www.caleydo.org
Bundle-RequiredExecutionEnvironment: JavaSE-1.7
Bundle-ClassPath: .,
lib/JRI.jar
Require-Bundle: org.caleydo.core;bundle-version="3.1.1.qualifier",
org.caleydo.view.histogram;bundle-version="3.1.1.qualifier",
Require-Bundle: org.caleydo.core;bundle-version="3.1.0",
org.caleydo.view.histogram;bundle-version="3.1.0",
de.walware.statet.base.core;bundle-version="2.0.1";resolution:=optional,
de.walware.statet.base.ui;bundle-version="2.0.1";resolution:=optional,
de.walware.statet.nico.core;bundle-version="2.0.0";resolution:=optional,
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4 changes: 2 additions & 2 deletions org.caleydo.view.bookmark/META-INF/MANIFEST.MF
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Expand Up @@ -2,8 +2,8 @@ Manifest-Version: 1.0
Bundle-ManifestVersion: 2
Bundle-Name: Bookmark View
Bundle-SymbolicName: org.caleydo.view.bookmark;singleton:=true
Bundle-Version: 3.1.1.qualifier
Require-Bundle: org.caleydo.core;bundle-version="3.1.1.qualifier"
Bundle-Version: 3.1.0
Require-Bundle: org.caleydo.core;bundle-version="3.1.0"
Bundle-RequiredExecutionEnvironment: JavaSE-1.7
Export-Package: org.caleydo.view.bookmark
Bundle-Vendor: www.caleydo.org
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2 changes: 1 addition & 1 deletion org.caleydo.view.bookmark/pom.xml
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Expand Up @@ -5,7 +5,7 @@
<parent>
<groupId>org.caleydo</groupId>
<artifactId>org.caleydo.parent</artifactId>
<version>3.1.1-SNAPSHOT</version>
<version>3.1.0</version>
<relativePath>../org.caleydo.parent</relativePath>
</parent>
<artifactId>org.caleydo.view.bookmark</artifactId>
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6 changes: 3 additions & 3 deletions org.caleydo.view.dvi/META-INF/MANIFEST.MF
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Expand Up @@ -2,12 +2,12 @@ Manifest-Version: 1.0
Bundle-ManifestVersion: 2
Bundle-Name: Data-View Integrator
Bundle-SymbolicName: org.caleydo.view.dvi;singleton:=true
Bundle-Version: 3.1.1.qualifier
Bundle-Version: 3.1.0
Bundle-Activator: org.caleydo.view.dvi.Activator
Require-Bundle: org.eclipse.ui,
org.eclipse.core.runtime,
org.caleydo.core;bundle-version="3.1.1.qualifier",
org.caleydo.datadomain.pathway;bundle-version="3.1.1.qualifier"
org.caleydo.core;bundle-version="3.1.0",
org.caleydo.datadomain.pathway;bundle-version="3.1.0"
Bundle-ActivationPolicy: lazy
Bundle-RequiredExecutionEnvironment: JavaSE-1.7
Bundle-Vendor: www.caleydo.org
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2 changes: 1 addition & 1 deletion org.caleydo.view.dvi/pom.xml
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Expand Up @@ -5,7 +5,7 @@
<parent>
<groupId>org.caleydo</groupId>
<artifactId>org.caleydo.parent</artifactId>
<version>3.1.1-SNAPSHOT</version>
<version>3.1.0</version>
<relativePath>../org.caleydo.parent</relativePath>
</parent>
<artifactId>org.caleydo.view.dvi</artifactId>
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12 changes: 6 additions & 6 deletions org.caleydo.view.enroute/META-INF/MANIFEST.MF
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Expand Up @@ -2,15 +2,15 @@ Manifest-Version: 1.0
Bundle-ManifestVersion: 2
Bundle-Name: enRoute Pathway
Bundle-SymbolicName: org.caleydo.view.enroute;singleton:=true
Bundle-Version: 3.1.1.qualifier
Bundle-Version: 3.1.0
Bundle-Activator: org.caleydo.view.enroute.Activator
Require-Bundle: org.eclipse.ui,
org.eclipse.core.runtime,
org.caleydo.core;bundle-version="3.1.1.qualifier",
org.caleydo.datadomain.pathway;bundle-version="3.1.1.qualifier",
org.caleydo.datadomain.genetic;bundle-version="3.1.1.qualifier",
org.caleydo.view.pathway;bundle-version="3.1.1.qualifier",
org.caleydo.util.bubblesets;bundle-version="3.1.1.qualifier"
org.caleydo.core;bundle-version="3.1.0",
org.caleydo.datadomain.pathway;bundle-version="3.1.0",
org.caleydo.datadomain.genetic;bundle-version="3.1.0",
org.caleydo.view.pathway;bundle-version="3.1.0",
org.caleydo.util.bubblesets;bundle-version="3.1.0"
Bundle-ActivationPolicy: lazy
Bundle-RequiredExecutionEnvironment: JavaSE-1.7
Bundle-Vendor: www.caleydo.org
2 changes: 1 addition & 1 deletion org.caleydo.view.enroute/pom.xml
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Expand Up @@ -5,7 +5,7 @@
<parent>
<groupId>org.caleydo</groupId>
<artifactId>org.caleydo.parent</artifactId>
<version>3.1.1-SNAPSHOT</version>
<version>3.1.0</version>
<relativePath>../org.caleydo.parent</relativePath>
</parent>
<artifactId>org.caleydo.view.enroute</artifactId>
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