Added BSD New LICENSE file and license statements to the top of each source file

Author: bill-baumgartner

LICENSE

@@ -0,0 +1,28 @@
+
+ Copyright (c) 2012, Regents of the University of Colorado
+ All rights reserved.
+
+ Redistribution and use in source and binary forms, with or without modification, 
+ are permitted provided that the following conditions are met:
+
+ * Redistributions of source code must retain the above copyright notice, this 
+    list of conditions and the following disclaimer.
+   
+ * Redistributions in binary form must reproduce the above copyright notice, 
+    this list of conditions and the following disclaimer in the documentation 
+    and/or other materials provided with the distribution.
+   
+ * Neither the name of the University of Colorado nor the names of its 
+    contributors may be used to endorse or promote products derived from this 
+    software without specific prior written permission.
+
+ THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND 
+ ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED 
+ WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE 
+ DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR
+ ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES 
+ (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; 
+ LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON 
+ ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT 
+ (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS 
+ SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.

ccp-nlp-core/src/main/java/edu/ucdenver/ccp/nlp/core/annotation/AnnotationSet.java

@@ -1,23 +1,32 @@
 /*
- * AnnotationSet.java
- * Copyright (C) 2007 Center for Computational Pharmacology, University of Colorado School of Medicine
- * 
- * This program 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 2
- * 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, write to the Free Software
- * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA.
- * 
+ Copyright (c) 2012, Regents of the University of Colorado
+ All rights reserved.
+
+ Redistribution and use in source and binary forms, with or without modification, 
+ are permitted provided that the following conditions are met:
+
+ * Redistributions of source code must retain the above copyright notice, this 
+    list of conditions and the following disclaimer.
+   
+ * Redistributions in binary form must reproduce the above copyright notice, 
+    this list of conditions and the following disclaimer in the documentation 
+    and/or other materials provided with the distribution.
+   
+ * Neither the name of the University of Colorado nor the names of its 
+    contributors may be used to endorse or promote products derived from this 
+    software without specific prior written permission.
+
+ THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND 
+ ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED 
+ WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE 
+ DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR
+ ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES 
+ (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; 
+ LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON 
+ ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT 
+ (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS 
+ SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
  */
-
 package edu.ucdenver.ccp.nlp.core.annotation;
 
 import java.io.PrintStream;

ccp-nlp-core/src/main/java/edu/ucdenver/ccp/nlp/core/annotation/Annotation_Util.java

@@ -1,23 +1,32 @@
 /*
- * Annotation_Util.java
- * Copyright (C) 2007 Center for Computational Pharmacology, University of Colorado School of Medicine
- * 
- * This program 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 2
- * 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, write to the Free Software
- * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA.
- * 
- */
+ Copyright (c) 2012, Regents of the University of Colorado
+ All rights reserved.
+
+ Redistribution and use in source and binary forms, with or without modification, 
+ are permitted provided that the following conditions are met:
 
+ * Redistributions of source code must retain the above copyright notice, this 
+    list of conditions and the following disclaimer.
+   
+ * Redistributions in binary form must reproduce the above copyright notice, 
+    this list of conditions and the following disclaimer in the documentation 
+    and/or other materials provided with the distribution.
+   
+ * Neither the name of the University of Colorado nor the names of its 
+    contributors may be used to endorse or promote products derived from this 
+    software without specific prior written permission.
+
+ THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND 
+ ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED 
+ WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE 
+ DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR
+ ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES 
+ (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; 
+ LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON 
+ ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT 
+ (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS 
+ SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
+ */
 package edu.ucdenver.ccp.nlp.core.annotation;
 
 import java.util.Arrays;

ccp-nlp-core/src/main/java/edu/ucdenver/ccp/nlp/core/annotation/Annotator.java

@@ -1,23 +1,32 @@
 /*
- * Annotator.java
- * Copyright (C) 2007 Center for Computational Pharmacology, University of Colorado School of Medicine
- * 
- * This program 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 2
- * 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, write to the Free Software
- * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA.
- * 
+ Copyright (c) 2012, Regents of the University of Colorado
+ All rights reserved.
+
+ Redistribution and use in source and binary forms, with or without modification, 
+ are permitted provided that the following conditions are met:
+
+ * Redistributions of source code must retain the above copyright notice, this 
+    list of conditions and the following disclaimer.
+   
+ * Redistributions in binary form must reproduce the above copyright notice, 
+    this list of conditions and the following disclaimer in the documentation 
+    and/or other materials provided with the distribution.
+   
+ * Neither the name of the University of Colorado nor the names of its 
+    contributors may be used to endorse or promote products derived from this 
+    software without specific prior written permission.
+
+ THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND 
+ ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED 
+ WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE 
+ DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR
+ ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES 
+ (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; 
+ LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON 
+ ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT 
+ (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS 
+ SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
  */
-
 package edu.ucdenver.ccp.nlp.core.annotation;
 
 import java.io.PrintStream;

ccp-nlp-core/src/main/java/edu/ucdenver/ccp/nlp/core/annotation/InvalidSpanException.java

@@ -1,23 +1,32 @@
 /*
- * InvalidSpanException.java
- * Copyright (C) 2007 Center for Computational Pharmacology, University of Colorado School of Medicine
- * 
- * This program 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 2
- * 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, write to the Free Software
- * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA.
- * 
- */
+ Copyright (c) 2012, Regents of the University of Colorado
+ All rights reserved.
 
+ Redistribution and use in source and binary forms, with or without modification, 
+ are permitted provided that the following conditions are met:
+
+ * Redistributions of source code must retain the above copyright notice, this 
+    list of conditions and the following disclaimer.
+   
+ * Redistributions in binary form must reproduce the above copyright notice, 
+    this list of conditions and the following disclaimer in the documentation 
+    and/or other materials provided with the distribution.
+   
+ * Neither the name of the University of Colorado nor the names of its 
+    contributors may be used to endorse or promote products derived from this 
+    software without specific prior written permission.
+
+ THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND 
+ ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED 
+ WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE 
+ DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR
+ ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES 
+ (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; 
+ LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON 
+ ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT 
+ (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS 
+ SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
+ */
 package edu.ucdenver.ccp.nlp.core.annotation;
 
 /**

ccp-nlp-core/src/main/java/edu/ucdenver/ccp/nlp/core/annotation/Span.java

@@ -1,23 +1,32 @@
 /*
- * Span.java
- * Copyright (C) 2007 Center for Computational Pharmacology, University of Colorado School of Medicine
- * 
- * This program 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 2
- * 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, write to the Free Software
- * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA  02110-1301, USA.
- * 
+ Copyright (c) 2012, Regents of the University of Colorado
+ All rights reserved.
+
+ Redistribution and use in source and binary forms, with or without modification, 
+ are permitted provided that the following conditions are met:
+
+ * Redistributions of source code must retain the above copyright notice, this 
+    list of conditions and the following disclaimer.
+   
+ * Redistributions in binary form must reproduce the above copyright notice, 
+    this list of conditions and the following disclaimer in the documentation 
+    and/or other materials provided with the distribution.
+   
+ * Neither the name of the University of Colorado nor the names of its 
+    contributors may be used to endorse or promote products derived from this 
+    software without specific prior written permission.
+
+ THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND 
+ ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED 
+ WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE 
+ DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR
+ ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES 
+ (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; 
+ LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON 
+ ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT 
+ (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS 
+ SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
  */
-
 package edu.ucdenver.ccp.nlp.core.annotation;
 
 import java.util.Comparator;

ccp-nlp-core/src/main/java/edu/ucdenver/ccp/nlp/core/annotation/SpanUtils.java

@@ -1,3 +1,32 @@
+/*
+ Copyright (c) 2012, Regents of the University of Colorado
+ All rights reserved.
+
+ Redistribution and use in source and binary forms, with or without modification, 
+ are permitted provided that the following conditions are met:
+
+ * Redistributions of source code must retain the above copyright notice, this 
+    list of conditions and the following disclaimer.
+   
+ * Redistributions in binary form must reproduce the above copyright notice, 
+    this list of conditions and the following disclaimer in the documentation 
+    and/or other materials provided with the distribution.
+   
+ * Neither the name of the University of Colorado nor the names of its 
+    contributors may be used to endorse or promote products derived from this 
+    software without specific prior written permission.
+
+ THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND 
+ ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED 
+ WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE 
+ DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR
+ ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES 
+ (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; 
+ LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON 
+ ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT 
+ (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS 
+ SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
+ */
 package edu.ucdenver.ccp.nlp.core.annotation;
 
 import java.util.Iterator;

ccp-nlp-core/src/main/java/edu/ucdenver/ccp/nlp/core/annotation/TextAnnotation.java

@@ -1,3 +1,32 @@
+/*
+ Copyright (c) 2012, Regents of the University of Colorado
+ All rights reserved.
+
+ Redistribution and use in source and binary forms, with or without modification, 
+ are permitted provided that the following conditions are met:
+
+ * Redistributions of source code must retain the above copyright notice, this 
+    list of conditions and the following disclaimer.
+   
+ * Redistributions in binary form must reproduce the above copyright notice, 
+    this list of conditions and the following disclaimer in the documentation 
+    and/or other materials provided with the distribution.
+   
+ * Neither the name of the University of Colorado nor the names of its 
+    contributors may be used to endorse or promote products derived from this 
+    software without specific prior written permission.
+
+ THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND 
+ ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED 
+ WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE 
+ DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE FOR
+ ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES 
+ (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; 
+ LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON 
+ ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT 
+ (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS 
+ SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
+ */
 package edu.ucdenver.ccp.nlp.core.annotation;
 
 import java.io.PrintStream;