move license generation to gradle and refresh licenses

sybila · Nov 24, 2016 · 2101524 · 2101524
1 parent 4073cd6
commit 2101524
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diff --git a/LICENSE.txt b/LICENSE.txt
diff --git a/application/src/main/java/org/sybila/parasim/application/ApplicationExtension.java b/application/src/main/java/org/sybila/parasim/application/ApplicationExtension.java
@@ -1,3 +1,22 @@
+/**
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
+ * contributors by the @authors tag.
+ *
+ * This file is part of Parasim.
+ *
+ * Parasim is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU General Public License as published by
+ * the Free Software Foundation, either version 3 of the License, or
+ * (at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program.  If not, see <http://www.gnu.org/licenses/>.
+ */
 package org.sybila.parasim.application;
 
 import org.sybila.parasim.core.api.loader.ExtensionBuilder;

diff --git a/application/src/main/java/org/sybila/parasim/application/ConfigurationRegistrar.java b/application/src/main/java/org/sybila/parasim/application/ConfigurationRegistrar.java
@@ -1,3 +1,22 @@
+/**
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
+ * contributors by the @authors tag.
+ *
+ * This file is part of Parasim.
+ *
+ * Parasim is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU General Public License as published by
+ * the Free Software Foundation, either version 3 of the License, or
+ * (at your option) any later version.
+ *
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+ * GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with this program.  If not, see <http://www.gnu.org/licenses/>.
+ */
 package org.sybila.parasim.application;
 
 import org.sybila.parasim.application.model.ApplicationConfiguration;

diff --git a/application/src/main/java/org/sybila/parasim/application/Main.java b/application/src/main/java/org/sybila/parasim/application/Main.java
@@ -1,5 +1,5 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.

diff --git a/application/src/main/java/org/sybila/parasim/application/ParasimOptions.java b/application/src/main/java/org/sybila/parasim/application/ParasimOptions.java
@@ -1,5 +1,5 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.

diff --git a/application/src/main/java/org/sybila/parasim/application/actions/AbstractAction.java b/application/src/main/java/org/sybila/parasim/application/actions/AbstractAction.java
@@ -1,5 +1,5 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.

diff --git a/application/src/main/java/org/sybila/parasim/application/actions/Action.java b/application/src/main/java/org/sybila/parasim/application/actions/Action.java
@@ -1,5 +1,5 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.

diff --git a/application/src/main/java/org/sybila/parasim/application/actions/Actions.java b/application/src/main/java/org/sybila/parasim/application/actions/Actions.java
@@ -1,5 +1,5 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.

diff --git a/application/src/main/java/org/sybila/parasim/application/actions/ExecuteComputation.java b/application/src/main/java/org/sybila/parasim/application/actions/ExecuteComputation.java
@@ -1,5 +1,5 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.

diff --git a/application/src/main/java/org/sybila/parasim/application/actions/ExportToCsv.java b/application/src/main/java/org/sybila/parasim/application/actions/ExportToCsv.java
@@ -1,5 +1,5 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.

diff --git a/application/src/main/java/org/sybila/parasim/application/actions/Help.java b/application/src/main/java/org/sybila/parasim/application/actions/Help.java
@@ -1,5 +1,5 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.

diff --git a/application/src/main/java/org/sybila/parasim/application/actions/LoadExperiment.java b/application/src/main/java/org/sybila/parasim/application/actions/LoadExperiment.java
@@ -1,5 +1,5 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.

diff --git a/application/src/main/java/org/sybila/parasim/application/actions/LoadResult.java b/application/src/main/java/org/sybila/parasim/application/actions/LoadResult.java
@@ -1,5 +1,5 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.

diff --git a/application/src/main/java/org/sybila/parasim/application/actions/PlotResults.java b/application/src/main/java/org/sybila/parasim/application/actions/PlotResults.java
@@ -1,5 +1,5 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.

diff --git a/application/src/main/java/org/sybila/parasim/application/actions/Shutdown.java b/application/src/main/java/org/sybila/parasim/application/actions/Shutdown.java
@@ -1,5 +1,5 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.

diff --git a/application/src/main/java/org/sybila/parasim/application/actions/StartGuiManager.java b/application/src/main/java/org/sybila/parasim/application/actions/StartGuiManager.java
@@ -1,5 +1,5 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.

diff --git a/application/src/main/java/org/sybila/parasim/application/actions/StartServer.java b/application/src/main/java/org/sybila/parasim/application/actions/StartServer.java
@@ -1,5 +1,5 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.

diff --git a/application/src/main/java/org/sybila/parasim/application/model/ApplicationConfiguration.java b/application/src/main/java/org/sybila/parasim/application/model/ApplicationConfiguration.java
@@ -1,21 +1,21 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.
  *
- * Parasim is free software: you can redistribute it and/or modify it under the
- * terms of the GNU General Public License as published by the Free Software
- * Foundation, either version 3 of the License, or (at your option) any later
- * version.
+ * Parasim is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU General Public License as published by
+ * the Free Software Foundation, either version 3 of the License, or
+ * (at your option) any later version.
  *
- * This program is distributed in the hope that it will be useful, but WITHOUT
- * ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS
- * FOR A PARTICULAR PURPOSE. See the GNU General Public License for more
- * details.
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+ * GNU General Public License for more details.
  *
- * You should have received a copy of the GNU General Public License along with
- * this program. If not, see <http://www.gnu.org/licenses/>.
+ * You should have received a copy of the GNU General Public License
+ * along with this program.  If not, see <http://www.gnu.org/licenses/>.
  */
 package org.sybila.parasim.application.model;
 

diff --git a/application/src/main/java/org/sybila/parasim/application/model/ExperimentImpl.java b/application/src/main/java/org/sybila/parasim/application/model/ExperimentImpl.java
@@ -1,5 +1,5 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.

diff --git a/application/src/main/java/org/sybila/parasim/application/model/ExperimentLauncher.java b/application/src/main/java/org/sybila/parasim/application/model/ExperimentLauncher.java
@@ -1,21 +1,21 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.
  *
- * Parasim is free software: you can redistribute it and/or modify it under the
- * terms of the GNU General Public License as published by the Free Software
- * Foundation, either version 3 of the License, or (at your option) any later
- * version.
+ * Parasim is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU General Public License as published by
+ * the Free Software Foundation, either version 3 of the License, or
+ * (at your option) any later version.
  *
- * This program is distributed in the hope that it will be useful, but WITHOUT
- * ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS
- * FOR A PARTICULAR PURPOSE. See the GNU General Public License for more
- * details.
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+ * GNU General Public License for more details.
  *
- * You should have received a copy of the GNU General Public License along with
- * this program. If not, see <http://www.gnu.org/licenses/>.
+ * You should have received a copy of the GNU General Public License
+ * along with this program.  If not, see <http://www.gnu.org/licenses/>.
  */
 package org.sybila.parasim.application.model;
 

diff --git a/application/src/main/java/org/sybila/parasim/application/model/ResultUtils.java b/application/src/main/java/org/sybila/parasim/application/model/ResultUtils.java
@@ -1,5 +1,5 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.

diff --git a/...ion/src/main/java/org/sybila/parasim/application/model/TrajectoryAnalysisComputation.java b/...ion/src/main/java/org/sybila/parasim/application/model/TrajectoryAnalysisComputation.java
@@ -1,21 +1,21 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.
  *
- * Parasim is free software: you can redistribute it and/or modify it under the
- * terms of the GNU General Public License as published by the Free Software
- * Foundation, either version 3 of the License, or (at your option) any later
- * version.
+ * Parasim is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU General Public License as published by
+ * the Free Software Foundation, either version 3 of the License, or
+ * (at your option) any later version.
  *
- * This program is distributed in the hope that it will be useful, but WITHOUT
- * ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS
- * FOR A PARTICULAR PURPOSE. See the GNU General Public License for more
- * details.
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+ * GNU General Public License for more details.
  *
- * You should have received a copy of the GNU General Public License along with
- * this program. If not, see <http://www.gnu.org/licenses/>.
+ * You should have received a copy of the GNU General Public License
+ * along with this program.  If not, see <http://www.gnu.org/licenses/>.
  */
 package org.sybila.parasim.application.model;
 

diff --git a/...cation/src/main/java/org/sybila/parasim/application/model/ValidityRegionsComputation.java b/...cation/src/main/java/org/sybila/parasim/application/model/ValidityRegionsComputation.java
@@ -1,21 +1,21 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.
  *
- * Parasim is free software: you can redistribute it and/or modify it under the
- * terms of the GNU General Public License as published by the Free Software
- * Foundation, either version 3 of the License, or (at your option) any later
- * version.
+ * Parasim is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU General Public License as published by
+ * the Free Software Foundation, either version 3 of the License, or
+ * (at your option) any later version.
  *
- * This program is distributed in the hope that it will be useful, but WITHOUT
- * ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS
- * FOR A PARTICULAR PURPOSE. See the GNU General Public License for more
- * details.
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+ * GNU General Public License for more details.
  *
- * You should have received a copy of the GNU General Public License along with
- * this program. If not, see <http://www.gnu.org/licenses/>.
+ * You should have received a copy of the GNU General Public License
+ * along with this program.  If not, see <http://www.gnu.org/licenses/>.
  */
 package org.sybila.parasim.application.model;
 

diff --git a/.../src/main/java/org/sybila/parasim/application/model/ValidityRegionsIterationBalancer.java b/.../src/main/java/org/sybila/parasim/application/model/ValidityRegionsIterationBalancer.java
@@ -1,5 +1,5 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.

diff --git a/...rc/main/java/org/sybila/parasim/application/model/ValidityRegionsIterationComparator.java b/...rc/main/java/org/sybila/parasim/application/model/ValidityRegionsIterationComparator.java
@@ -1,5 +1,5 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.

diff --git a/...n/src/main/java/org/sybila/parasim/application/model/ValidityRegionsIterationOfferer.java b/...n/src/main/java/org/sybila/parasim/application/model/ValidityRegionsIterationOfferer.java
@@ -1,5 +1,5 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.

diff --git a/application/src/main/java/org/sybila/parasim/application/model/ValidityRegionsSelector.java b/application/src/main/java/org/sybila/parasim/application/model/ValidityRegionsSelector.java
@@ -1,5 +1,5 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.

diff --git a/.../src/test/java/org/sybila/parasim/application/ftest/lorenz84/TestDistributedExecutor.java b/.../src/test/java/org/sybila/parasim/application/ftest/lorenz84/TestDistributedExecutor.java
@@ -1,5 +1,5 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.

diff --git a/...n/src/test/java/org/sybila/parasim/application/ftest/lorenz84/TestLorenz84Oscilation.java b/...n/src/test/java/org/sybila/parasim/application/ftest/lorenz84/TestLorenz84Oscilation.java
@@ -1,5 +1,5 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.

diff --git a/application/src/test/java/org/sybila/parasim/application/model/TestExperimentLauncher.java b/application/src/test/java/org/sybila/parasim/application/model/TestExperimentLauncher.java
@@ -1,5 +1,5 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.

diff --git a/...on/src/test/java/org/sybila/parasim/application/model/TestValidityRegionsComputation.java b/...on/src/test/java/org/sybila/parasim/application/model/TestValidityRegionsComputation.java
@@ -1,21 +1,21 @@
 /**
- * Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+ * Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
  * contributors by the @authors tag.
  *
  * This file is part of Parasim.
  *
- * Parasim is free software: you can redistribute it and/or modify it under the
- * terms of the GNU General Public License as published by the Free Software
- * Foundation, either version 3 of the License, or (at your option) any later
- * version.
+ * Parasim is free software: you can redistribute it and/or modify
+ * it under the terms of the GNU General Public License as published by
+ * the Free Software Foundation, either version 3 of the License, or
+ * (at your option) any later version.
  *
- * This program is distributed in the hope that it will be useful, but WITHOUT
- * ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS
- * FOR A PARTICULAR PURPOSE. See the GNU General Public License for more
- * details.
+ * This program is distributed in the hope that it will be useful,
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
+ * GNU General Public License for more details.
  *
- * You should have received a copy of the GNU General Public License along with
- * this program. If not, see <http://www.gnu.org/licenses/>.
+ * You should have received a copy of the GNU General Public License
+ * along with this program.  If not, see <http://www.gnu.org/licenses/>.
  */
 package org.sybila.parasim.application.model;
 

diff --git a/application/src/test/resources/formula.xml b/application/src/test/resources/formula.xml
@@ -1,7 +1,7 @@
 <?xml version="1.0" encoding="UTF-8"?>
 <!--
 
-    Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+    Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
     contributors by the @authors tag.
 
     This file is part of Parasim.

diff --git a/application/src/test/resources/model.xml b/application/src/test/resources/model.xml
@@ -1,7 +1,7 @@
 <?xml version="1.0" encoding="UTF-8"?>
 <!--
 
-    Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+    Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
     contributors by the @authors tag.
 
     This file is part of Parasim.

diff --git a/.../test/resources/org/sybila/parasim/application/ftest/lorenz84/experiment-oscil.properties b/.../test/resources/org/sybila/parasim/application/ftest/lorenz84/experiment-oscil.properties
@@ -1,5 +1,5 @@
 #
-# Copyright 2011 - 2013, Sybila, Systems Biology Laboratory and individual
+# Copyright 2011-2016, Sybila, Systems Biology Laboratory and individual
 # contributors by the @authors tag.
 #
 # This file is part of Parasim.