ASF license headers
.. handle #comments in localworker_names
diff --git a/taverna-localworker-activity-ui/src/main/java/org/apache/taverna/activities/localworker/servicedescriptions/LocalworkerServiceProvider.java b/taverna-localworker-activity-ui/src/main/java/org/apache/taverna/activities/localworker/servicedescriptions/LocalworkerServiceProvider.java
index dc86643..00a5c77 100644
--- a/taverna-localworker-activity-ui/src/main/java/org/apache/taverna/activities/localworker/servicedescriptions/LocalworkerServiceProvider.java
+++ b/taverna-localworker-activity-ui/src/main/java/org/apache/taverna/activities/localworker/servicedescriptions/LocalworkerServiceProvider.java
@@ -220,6 +220,8 @@
if (line.startsWith("category")) {
String[] split = line.split(":");
category = split[1];
+ } else if (line.startsWith("#")) {
+ continue; // comments
} else {
LocalworkerServiceDescription createItem;
try {
@@ -229,7 +231,7 @@
continue;
}
createItem.setCategory(category);
- createItem.setProvider("myGrid");
+ createItem.setProvider("Taverna");
items.add(createItem);
}
}
diff --git a/taverna-localworker-activity-ui/src/main/resources/localworker_names b/taverna-localworker-activity-ui/src/main/resources/localworker_names
index 3df452c..74592c5 100644
--- a/taverna-localworker-activity-ui/src/main/resources/localworker_names
+++ b/taverna-localworker-activity-ui/src/main/resources/localworker_names
@@ -1,3 +1,18 @@
+# Licensed to the Apache Software Foundation (ASF) under one or more
+# contributor license agreements. See the NOTICE file distributed with
+# this work for additional information regarding copyright ownership.
+# The ASF licenses this file to You under the Apache License, Version 2.0
+# (the "License"); you may not use this file except in compliance with
+# the License. You may obtain a copy of the License at
+#
+# http://www.apache.org/licenses/LICENSE-2.0
+#
+# Unless required by applicable law or agreed to in writing, software
+# distributed under the License is distributed on an "AS IS" BASIS,
+# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+# See the License for the specific language governing permissions and
+# limitations under the License.
+#
category:biojava
net.sourceforge.taverna.scuflworkers.biojava.GenBankParserWorker
net.sourceforge.taverna.scuflworkers.biojava.ReverseCompWorker
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.biojava.GenBankParserWorker.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.biojava.GenBankParserWorker.json
index 452850f..df57fbc 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.biojava.GenBankParserWorker.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.biojava.GenBankParserWorker.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "import org.biojava.bio.seq.Sequence;\nimport org.biojava.bio.seq.SequenceIterator;\nimport org.biojava.bio.seq.io.SeqIOTools;\nimport org.biojava.bio.seq.io.agave.AgaveWriter;\n\nBufferedReader getReader (String fileUrl) throws IOException {\n\t\tInputStreamReader reader;\n\t\ttry {\n\t\t\treader = new FileReader(fileUrl);\n\t\t}\n\t\tcatch (FileNotFoundException e) {\n\t\t\t// try a real URL instead\n\t\t\tURL url = new URL(fileUrl);\n\t\t\treader = new InputStreamReader (url.openStream());\n\t\t}\n\t\treturn new BufferedReader(reader);\n\t}\n\nif ((fileUrl == void) || (fileUrl == null)) {\n throw new RuntimeException(\"The fileUrl must be specified\");\n}\n\nBufferedReader br = getReader(fileUrl);\n\n// read the GenBank File\nSequenceIterator sequences = SeqIOTools.readGenbank(br);\n\n// iterate through the sequences\nByteArrayOutputStream os = new ByteArrayOutputStream();\nStringBuffer sb = new StringBuffer();\nAgaveWriter writer = new AgaveWriter();\nPrintStream ps = new PrintStream(os);\n\nwhile (sequences.hasNext()) {\n\tSequence seq = sequences.nextSequence();\n\twriter.writeSequence(seq, ps);\n\tsb.append(os.toString());\n}\n\ngenbankdata = sb.toString();\nbr.close();\nps.close();\n \n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.biojava.GenBankParserWorker",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.biojava.ReverseCompWorker.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.biojava.ReverseCompWorker.json
index c214819..c4d4caf 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.biojava.ReverseCompWorker.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.biojava.ReverseCompWorker.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "import org.biojava.bio.seq.DNATools;\nimport org.biojava.bio.symbol.SymbolList;\n\nif ((rawSeq == void) || (rawSeq == null)) {\n throw new RuntimeException(\"The rawSeq must be specified\");\n}\n\n// make a DNA SymbolListbena\nSymbolList symL = DNATools.createDNA(rawSeq);\n\n// reverse complement it\nsymL = DNATools.reverseComplement(symL);\n\n// prove that it worked\nrevSeq = symL.seqString();\n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.biojava.ReverseCompWorker",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.biojava.SwissProtParserWorker.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.biojava.SwissProtParserWorker.json
index 929c316..fd42c00 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.biojava.SwissProtParserWorker.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.biojava.SwissProtParserWorker.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "import org.biojava.bio.seq.Sequence;\nimport org.biojava.bio.seq.SequenceIterator;\nimport org.biojava.bio.seq.io.SeqIOTools;\nimport org.biojava.bio.seq.io.agave.AgaveWriter;\n\nBufferedReader getReader (String fileUrl) throws IOException {\n\t\tInputStreamReader reader;\n\t\ttry {\n\t\t\treader = new FileReader(fileUrl);\n\t\t}\n\t\tcatch (FileNotFoundException e) {\n\t\t\t// try a real URL instead\n\t\t\tURL url = new URL(fileUrl);\n\t\t\treader = new InputStreamReader (url.openStream());\n\t\t}\n\t\treturn new BufferedReader(reader);\n\t}\n\t\nif ((fileUrl == void) || (fileUrl == null)) {\n throw new RuntimeException(\"The fileUrl must be specified\");\n}\n\t\nBufferedReader br = getReader(fileUrl);\n\n// read the EMBL File\nSequenceIterator sequences = SeqIOTools.readSwissprot(br);\n\n// Prepare the writer\nAgaveWriter writer = new AgaveWriter();\nByteArrayOutputStream os = new ByteArrayOutputStream();\nStringBuffer sb = new StringBuffer();\nPrintStream ps = new PrintStream(os);\n\n// iterate through the sequences\nwhile (sequences.hasNext()) {\n\tSequence seq = sequences.nextSequence();\n\twriter.writeSequence(seq, ps);\n\tsb.append(os.toString());\n}\nresults = sb.toString();\n\nbr.close();\nps.close();\n \n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.biojava.SwissProtParserWorker",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.biojava.TranscribeWorker.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.biojava.TranscribeWorker.json
index 767852c..0af54f8 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.biojava.TranscribeWorker.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.biojava.TranscribeWorker.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "import org.biojava.bio.seq.DNATools;\nimport org.biojava.bio.seq.RNATools;\nimport org.biojava.bio.symbol.SymbolList;\n\nif ((dna_seq == void) || (dna_seq == null)) {\n\tthrow new RuntimeException(\"The dna_seq must be specified\");\n}\n\n// make a DNA SymbolList\nSymbolList symL = DNATools.createDNA(dna_seq);\n\n// transcribe it to RNA (after BioJava 1.4 this method is\n// deprecated)\nsymL = RNATools.transcribe(symL);\n\n// (after BioJava 1.4 use this method instead)\n// symL = DNATools.toRNA(symL);\n\n// just to prove it worked\nrna_seq = symL.seqString();\n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.biojava.TranscribeWorker",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.ConcatenateFileListWorker.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.ConcatenateFileListWorker.json
index d91d466..0c3265d 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.ConcatenateFileListWorker.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.ConcatenateFileListWorker.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "BufferedReader getReader (String fileUrl) throws IOException {\n\t\tInputStreamReader reader;\n\t\ttry {\n\t\t\treader = new FileReader(fileUrl);\n\t\t}\n\t\tcatch (FileNotFoundException e) {\n\t\t\t// try a real URL instead\n\t\t\tURL url = new URL(fileUrl);\n\t\t\treader = new InputStreamReader (url.openStream());\n\t\t}\n\t\treturn new BufferedReader(reader);\n\t}\n\nString NEWLINE = System.getProperty(\"line.separator\");\n\nboolean displayResults = false;\nif (displayresults != void) {\n\tdisplayResults = Boolean.valueOf(displayresults).booleanValue();\n}\n\nStringBuffer sb = new StringBuffer(2000);\n\nif (outputfile == void) {\n\tthrow new RuntimeException(\"The 'outputfile' parameter cannot be null\");\n}\n\nif (filelist == null) {\n\tthrow new RuntimeException(\"The 'filelist' parameter cannot be null\");\n}\n\nString str = null;\n\nWriter writer = new FileWriter(outputfile);\nfor (int i = 0; i < filelist.size(); i++) {\n\tBufferedReader reader = getReader(filelist.get(i));\n\twhile ((str = reader.readLine()) != null) {\n\t\twriter.write(str);\n\t\twriter.write(NEWLINE);\n\n\t\tif (displayResults) {\n\t\t\tsb.append(str);\n\t\t\tsb.append(NEWLINE);\n\t\t}\n\t}\n\n\treader.close();\n\n}\nwriter.flush();\nwriter.close();\n\nif (displayResults) {\n\tresults= sb.toString();\n}\n\n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.io.ConcatenateFileListWorker",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.EnvVariableWorker.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.EnvVariableWorker.json
index 5dc2349..2f8c63b 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.EnvVariableWorker.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.EnvVariableWorker.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "import java.net.URLEncoder;\n\nProperties sysProps = System.getProperties();\nSet keys = sysProps.keySet();\nIterator it = keys.iterator();\nString currKey = null;\nStringBuffer sb = new StringBuffer();\nsb.append(\"<?xml version=\\\"1.0\\\"?>\\n\");\nsb.append(\"<property-list>\\n\");\nwhile (it.hasNext()) {\n\tcurrKey = (String) it.next();\n\tsb.append(\"<property \");\n\tsb.append(\" name=\\\"\" + URLEncoder.encode(currKey) + \"\\\"\");\n\tsb.append(\" value=\\\"\" + URLEncoder.encode(sysProps.getProperty(currKey)) + \"\\\"/>\\n\");\n}\nsb.append(\"</property-list>\");\n\nproperties = sb.toString();\n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.io.EnvVariableWorker",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.FileListByExtTask.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.FileListByExtTask.json
index 656453e..0205fed 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.FileListByExtTask.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.FileListByExtTask.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "class FileExtFilter implements FileFilter {\n\n\tpublic FileExtFilter(String ext) {\n\t\tthis.ext = ext;\n\t}\n\n\tpublic boolean accept(File file) {\n\t\treturn file.getName().endsWith(ext);\n\t}\n\n\tString ext = null;\n}\n\nif (extension == void || extension.equals(\"\")) {\n\tthrow new RuntimeException(\n\t\t\t\"The 'extension' parameter cannot be null. Please enter a valid file extension.\");\n}\n\nif (directory == void || directory.equals(\"\")) {\n\tthrow new RuntimeException(\n\t\t\t\"The 'directory' parameter cannot be null. Please enter a valid file directory.\");\n}\n\nFile dirObj = new File(directory);\n\nif (!dirObj.exists()) {\n\tthrow new RuntimeException(\"The 'directory' parameter specified:\" + directory\n\t\t\t+ \"does not exist. Please enter a valid file directory.\");\n}\n\nFile[] fileObjList = dirObj.listFiles(new FileExtFilter(extension));\nList filelist = new ArrayList();\nfor (int i = 0; i < fileObjList.length; i++) {\n\tfilelist.add(fileObjList[i].getAbsolutePath());\n}\n\n\n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.io.FileListByExtTask",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.FileListByRegexTask.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.FileListByRegexTask.json
index 35cdb01..f8fe3cb 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.FileListByRegexTask.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.FileListByRegexTask.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "class FileRegexFilter implements FileFilter {\n\n\tpublic FileRegexFilter(String regex) {\n\t\tthis.regex = regex;\n\t}\n\n\tpublic boolean accept(File file) {\n\t\treturn file.getName().matches(regex);\n\t}\n\n\tString regex = null;\n}\n\nif (regex == void || regex.equals(\"\")) {\n\tthrow new RuntimeException(\n\t\t\t\"The 'regex' parameter cannot be null. Please enter a valid file extension.\");\n}\n\nif (directory == void || directory.equals(\"\")) {\n\tthrow new RuntimeException(\n\t\t\t\"The 'directory' parameter cannot be null. Please enter a valid file directory.\");\n}\n\nFile dirObj = new File(directory);\n\nif (!dirObj.exists()) {\n\tthrow new RuntimeException(\"The 'directory' parameter specified:\" + directory\n\t\t\t+ \"does not exist. Please enter a valid file directory.\");\n}\n\nFile[] fileObjList = dirObj.listFiles(new FileRegexFilter(regex));\nList filelist = new ArrayList();\nfor (int i = 0; i < fileObjList.length; i++) {\n\tfilelist.add(fileObjList[i].getAbsolutePath());\n}\n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.io.FileListByRegexTask",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.LocalCommand.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.LocalCommand.json
index f6ddf4f..2649026 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.LocalCommand.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.LocalCommand.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "if (command == void || command.equals(\"\")) {\n\tthrow new RuntimeException(\"The 'command' port cannot be null.\");\n}\nProcess proc = null;\nRuntime rt = Runtime.getRuntime();\n\nString osName = System.getProperty(\"os.name\");\nString[] cmdArray = null;\nif (osName.contains(\"Windows\")) {\n\tcmdArray = new String[] { \"cmd.exe\", \"/c\", command };\n} else {// TODO: investigate if this will work in Linux and OSX\n\tcmdArray = new String[] { command };\n}\n\n// concatenate the arrays\nif ((args == void) || (args == null)) {\n\targs = new ArrayList();\n}\n\nint argSize = cmdArray.length + args.size();\nArrayList appArray = new ArrayList(argSize);\nfor (int i = 0; i < cmdArray.length; i++) {\n\tappArray.add(cmdArray[i]);\n}\n\nfor (int i = 0; i < args.size(); i++) {\n\tappArray.add(args.get(i));\n}\n\nString[] applist = new String[argSize];\nappArray.toArray(applist);\nproc = rt.exec(applist);\n\n// Get the input stream and read from it\nInputStream in = proc.getInputStream();\n\nint c;\nStringBuffer sb = new StringBuffer();\nwhile ((c = in.read()) != -1) {\n\tsb.append((char) c);\n}\nin.close();\nresult = sb.toString();\n \n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.io.LocalCommand",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.TextFileReader.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.TextFileReader.json
index 1424433..b7d0e20 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.TextFileReader.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.TextFileReader.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "BufferedReader getReader (String fileUrl, String encoding) throws IOException {\n\t\tInputStreamReader reader;\n\t\ttry {\n\t\t\tif (encoding == null) {\n\t\t\t\treader = new FileReader(fileUrl);\n\t\t\t} else {\n\t\t\t\treader = new InputStreamReader(new FileInputStream(fileUrl),encoding); \n\t\t\t}\n\t\t}\n\t\tcatch (FileNotFoundException e) {\n\t\t\t// try a real URL instead\n\t\t\tURL url = new URL(fileUrl);\n\t\t\tif (encoding == null) {\n\t\t\t\treader = new InputStreamReader (url.openStream());\n\t\t\t} else {\n\t\t\t\treader = new InputStreamReader (url.openStream(), encoding);\n\t\t\t}\n\t\t}\n\t\treturn new BufferedReader(reader);\n\t}\n\n\n\nStringBuffer sb = new StringBuffer(4000);\n\nif (encoding == void) {\n\tencoding = null;\n}\n\nBufferedReader in = getReader(fileurl, encoding);\nString str;\nString lineEnding = System.getProperty(\"line.separator\");\n\nwhile ((str = in.readLine()) != null) {\n\tsb.append(str);\n\tsb.append(lineEnding);\n}\nin.close();\nfilecontents = sb.toString();\n \n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.io.TextFileReader",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.TextFileWriter.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.TextFileWriter.json
index 5a9f368..11c5a00 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.TextFileWriter.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.io.TextFileWriter.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "\n BufferedWriter out;\n if (encoding == void) {\n \tout = new BufferedWriter(new FileWriter(outputFile));\n }\n else {\n \tout = new BufferedWriter(new OutputStreamWriter(new FileOutputStream(outputFile), encoding)); \n }\nout.write(filecontents);\nout.flush();\nout.close();\noutputFile = filecontents;\n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.io.TextFileWriter",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.jdbc.SQLQueryWorker.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.jdbc.SQLQueryWorker.json
index da1f005..c3752ec 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.jdbc.SQLQueryWorker.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.jdbc.SQLQueryWorker.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "\n import java.sql.Driver;\nimport java.sql.DriverManager;\nimport java.sql.Connection;\nimport java.sql.PreparedStatement;\nimport java.sql.ResultSet;\nimport java.sql.ResultSetMetaData;\nimport java.sql.SQLException;\n\nimport javax.sql.rowset.WebRowSet;\n\nimport com.sun.rowset.WebRowSetImpl;\n\n\n\nif ((driver == void) || (driver == null) || driver.equals(\"\")) {\n\tthrow new RuntimeException(\"The driver must be specified\");\n}\n\nif ((url == void) || (url == null) || url.equals(\"\")) {\n\tthrow new RuntimeException(\"The url must be specified\");\n}\n\nboolean provideXmlBoolean = ((provideXml != void) && (provideXml != null) && Boolean.valueOf(provideXml));\n\nif ((params == void) || (params == null)) {\n params = new ArrayList();\n}\n\nif ((sql == void) || (sql == null) || sql.equals(\"\")) {\n\tthrow new RuntimeException(\"The sql must be specified\");\n}\n\nClass c = Thread.currentThread().getContextClassLoader().loadClass(driver);\n\nif (c == null) {\n\tthrow new RuntimeException(\"Class \" + driver + \" not found\");\n}\n\nDriver d = c.newInstance();\nif (d == null) {\n\tthrow new RuntimeException(\"Could not create instance of driver\");\n}\n\nProperties p = new Properties();\n\nif ((userid == void) || (userid == null)) {\n\tuserid = \"\";\n}\n\np.setProperty(\"user\", userid);\n\nif ((password == void) || (password == null)) {\n\tpassword = \"\";\n}\n\np.setProperty(\"password\", password);\n\nConnection con = null;\nPreparedStatement ps = null;\nResultSet rs = null;\ntry {\n\n\tcon = d.connect(url, p);\n\tps = con.prepareStatement(sql);\n\n\tint paramSize = params.size();\n\tfor (int i = 0; i < paramSize; i++) {\n\t\tps.setObject(i + 1, params.get(i));\n\t}\n\n\trs = ps.executeQuery();\n\n\tif (provideXmlBoolean) {\n\t\tWebRowSet webrs = new WebRowSetImpl();\n\t\tStringWriter sw = new StringWriter();\n\t\twebrs.writeXml(rs, sw);\n\t\txmlresults = sw.toString();\n\t} else {\n\t\txmlresults = \"\";\n\t}\n\n\ttry {\n\t\trs.beforeFirst();\n\t} catch (SQLException e) {\n\t\t// redo the query\n\t\trs = ps.executeQuery();\n\t}\n\n\tResultSetMetaData rsmd = rs.getMetaData();\n\tint numCols = rsmd.getColumnCount();\n\tresultList = new ArrayList();\n\t\n\t// put the results into the results list.\n\twhile (rs.next()) {\n\t\tList row = new ArrayList(numCols);\n\t\tfor (int i = 0; i < numCols; i++) {\n\t\t\tString str = rs.getString(i + 1); \n\t\t\trow.add(str == null ? \"null\" : str); \n\t\t}\n\t\tresultList.add(row);\n\t}\n}\nfinally {\n\tif (rs != null) {\n\t\trs.close();\n\t}\n\tif (ps != null) {\n\t\tps.close();\n\t}\n\tif (con != null) {\n\t\tcon.close();\n\t}\n}\n \n\n ",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.jdbc.SQLQueryWorker",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.jdbc.SQLUpdateWorker.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.jdbc.SQLUpdateWorker.json
index 3144afd..7d32478 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.jdbc.SQLUpdateWorker.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.jdbc.SQLUpdateWorker.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "import java.sql.Driver;\nimport java.sql.DriverManager;\nimport java.sql.Connection;\nimport java.sql.PreparedStatement;\n\nif ((driver == void) || (driver == null) || driver.equals(\"\")) {\n\tthrow new RuntimeException(\"The driver must be specified\");\n}\n\nif ((url == void) || (url == null) || url.equals(\"\")) {\n\tthrow new RuntimeException(\"The url must be specified\");\n}\n\nif ((params == void) || (params == null)) {\n params = new ArrayList();\n}\n\nif ((sql == void) || (sql == null) || sql.equals(\"\")) {\n\tthrow new RuntimeException(\"The sql must be specified\");\n}\n\nClass c = Thread.currentThread().getContextClassLoader().loadClass(driver);\n\nif (c == null) {\n\tthrow new RuntimeException(\"Class \" + driver + \" not found\");\n}\n\nDriver d = c.newInstance();\nif (d == null) {\n\tthrow new RuntimeException(\"Could not create instance of driver\");\n}\n\nProperties p = new Properties();\n\nif ((userid == void) || (userid == null)) {\n\tuserid = \"\";\n}\n\np.setProperty(\"user\", userid);\n\nif ((password == void) || (password == null)) {\n\tpassword = \"\";\n}\n\np.setProperty(\"password\", password);\n\nConnection con = null;\nPreparedStatement ps = null;\n\ntry {\n\tcon = d.connect(url, p);\n\tps = con.prepareStatement(sql);\n\n\tint paramsSize = params.size();\n\tfor (int i = 0; i < paramsSize; i++) {\n\t\tps.setObject(i + 1, params.get(i));\n\t}\n\n\tps.executeUpdate();\n\n\tresultList = \"update successful\";\n}\nfinally {\n\tif (ps != null) {\n\t\tps.close();\n\t}\n\tif (con != null) {\n\t\tcon.close();\n\t}\n}\n\n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.jdbc.SQLUpdateWorker",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.NucleotideFastaWorker.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.NucleotideFastaWorker.json
index feb26cc..507a1dc 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.NucleotideFastaWorker.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.NucleotideFastaWorker.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "if ((id == void) || (id == null) || id.equals(\"\")) {\n\tthrow new RunTimeException(\"port id must have a non-empty value\");\n}\n\nURL url = new URL (\"http://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?rettype=fasta&db=nucleotide&retmode=text&id=\" + id);\n\nBufferedReader reader = new BufferedReader (new InputStreamReader(url.openStream()));\nStringWriter writer = new StringWriter();\n\nchar[] buffer = new char[1024];\n while (true) {\n int r = reader.read(buffer);\n if (r <= 0) {\n break;\n }\n writer.write(buffer, 0, r);\n }\nreader.close();\noutputText = writer.toString();\n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.ncbi.NucleotideFastaWorker",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.NucleotideGBSeqWorker.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.NucleotideGBSeqWorker.json
index e616f51..9e9c90e 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.NucleotideGBSeqWorker.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.NucleotideGBSeqWorker.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "if ((id == void) || (id == null) || id.equals(\"\")) {\n\tthrow new RunTimeException(\"port id must have a non-empty value\");\n}\n\nURL url = new URL (\"http://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?rettype=gb&db=nucleotide&retmode=xml&id=\" + id);\n\nBufferedReader reader = new BufferedReader (new InputStreamReader(url.openStream()));\nStringWriter writer = new StringWriter();\n\nchar[] buffer = new char[1024];\n while (true) {\n int r = reader.read(buffer);\n if (r <= 0) {\n break;\n }\n writer.write(buffer, 0, r);\n }\nreader.close();\noutputText = writer.toString();\n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.ncbi.NucleotideGBSeqWorker",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.NucleotideINSDSeqXMLWorker.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.NucleotideINSDSeqXMLWorker.json
index 8dfbdbe..c9aeb76 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.NucleotideINSDSeqXMLWorker.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.NucleotideINSDSeqXMLWorker.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "if ((id == void) || (id == null) || id.equals(\"\")) {\n\tthrow new RunTimeException(\"port id must have a non-empty value\");\n}\n\nURL url = new URL (\"http://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?rettype=gbc&db=nucleotide&retmode=xml&id=\" + id);\n\nBufferedReader reader = new BufferedReader (new InputStreamReader(url.openStream()));\nStringWriter writer = new StringWriter();\n\nchar[] buffer = new char[1024];\n while (true) {\n int r = reader.read(buffer);\n if (r <= 0) {\n break;\n }\n writer.write(buffer, 0, r);\n }\nreader.close();\noutputText = writer.toString();\n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.ncbi.NucleotideINSDSeqXMLWorker",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.NucleotideTinySeqXMLWorker.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.NucleotideTinySeqXMLWorker.json
index 3867455..3445468 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.NucleotideTinySeqXMLWorker.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.NucleotideTinySeqXMLWorker.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "if ((id == void) || (id == null) || id.equals(\"\")) {\n\tthrow new RunTimeException(\"port id must have a non-empty value\");\n}\n\nURL url = new URL (\"http://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?rettype=fasta&db=nucleotide&retmode=xml&id=\" + id);\n\nBufferedReader reader = new BufferedReader (new InputStreamReader(url.openStream()));\nStringWriter writer = new StringWriter();\n\nchar[] buffer = new char[1024];\n while (true) {\n int r = reader.read(buffer);\n if (r <= 0) {\n break;\n }\n writer.write(buffer, 0, r);\n }\nreader.close();\noutputText = writer.toString();\n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.ncbi.NucleotideTinySeqXMLWorker",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.ProteinFastaWorker.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.ProteinFastaWorker.json
index fc5b181..bee2b2f 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.ProteinFastaWorker.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.ProteinFastaWorker.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "if ((id == void) || (id == null) || id.equals(\"\")) {\n\tthrow new RunTimeException(\"port id must have a non-empty value\");\n}\n\nURL url = new URL (\"http://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?rettype=fasta&db=protein&retmode=text&id=\" + id);\n\nBufferedReader reader = new BufferedReader (new InputStreamReader(url.openStream()));\nStringWriter writer = new StringWriter();\n\nchar[] buffer = new char[1024];\n while (true) {\n int r = reader.read(buffer);\n if (r <= 0) {\n break;\n }\n writer.write(buffer, 0, r);\n }\nreader.close();\noutputText = writer.toString();\n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.ncbi.ProteinFastaWorker",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.ProteinGBSeqWorker.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.ProteinGBSeqWorker.json
index 160ce92..e766c45 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.ProteinGBSeqWorker.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.ProteinGBSeqWorker.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "if ((id == void) || (id == null) || id.equals(\"\")) {\n\tthrow new RunTimeException(\"port id must have a non-empty value\");\n}\n\nURL url = new URL (\"http://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?rettype=gb&db=protein&retmode=xml&id=\" + id);\n\nBufferedReader reader = new BufferedReader (new InputStreamReader(url.openStream()));\nStringWriter writer = new StringWriter();\n\nchar[] buffer = new char[1024];\n while (true) {\n int r = reader.read(buffer);\n if (r <= 0) {\n break;\n }\n writer.write(buffer, 0, r);\n }\nreader.close();\noutputText = writer.toString();\n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.ncbi.ProteinGBSeqWorker",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.ProteinINSDSeqXMLWorker.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.ProteinINSDSeqXMLWorker.json
index 6e36120..c5c81fa 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.ProteinINSDSeqXMLWorker.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.ProteinINSDSeqXMLWorker.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "if ((id == void) || (id == null) || id.equals(\"\")) {\n\tthrow new RunTimeException(\"port id must have a non-empty value\");\n}\n\nURL url = new URL (\"http://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?rettype=gbc&db=protein&retmode=xml&id=\" + id);\n\nBufferedReader reader = new BufferedReader (new InputStreamReader(url.openStream()));\nStringWriter writer = new StringWriter();\n\nchar[] buffer = new char[1024];\n while (true) {\n int r = reader.read(buffer);\n if (r <= 0) {\n break;\n }\n writer.write(buffer, 0, r);\n }\nreader.close();\noutputText = writer.toString();\n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.ncbi.ProteinINSDSeqXMLWorker",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.ProteinTinySeqXMLWorker.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.ProteinTinySeqXMLWorker.json
index 471e000..cf6e8d6 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.ProteinTinySeqXMLWorker.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.ProteinTinySeqXMLWorker.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "if ((id == void) || (id == null) || id.equals(\"\")) {\n\tthrow new RunTimeException(\"port id must have a non-empty value\");\n}\n\nURL url = new URL (\"http://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?rettype=fasta&db=protein&retmode=xml&id=\" + id);\n\nBufferedReader reader = new BufferedReader (new InputStreamReader(url.openStream()));\nStringWriter writer = new StringWriter();\n\nchar[] buffer = new char[1024];\n while (true) {\n int r = reader.read(buffer);\n if (r <= 0) {\n break;\n }\n writer.write(buffer, 0, r);\n }\nreader.close();\noutputText = writer.toString();\n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.ncbi.ProteinTinySeqXMLWorker",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.PubMedEFetchWorker.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.PubMedEFetchWorker.json
index 5e2a7df..ba975b1 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.PubMedEFetchWorker.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.PubMedEFetchWorker.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "if ((id == void) || (id == null) || id.equals(\"\")) {\n\tthrow new RunTimeException(\"port id must have a non-empty value\");\n}\n\nURL url = new URL (\"http://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=pubmed\" +\n\"&rettype=\" + (((rettype == void ) || (rettype == null)) ? \"full\" : rettype) +\n\"&retmode=\" + (((retmode == void) || (retmode == null)) ? \"xml\" : retmode) +\n\"&id=\" + id);\n\nBufferedReader reader = new BufferedReader (new InputStreamReader(url.openStream()));\nStringWriter writer = new StringWriter();\n\nchar[] buffer = new char[1024];\n while (true) {\n int r = reader.read(buffer);\n if (r <= 0) {\n break;\n }\n writer.write(buffer, 0, r);\n }\nreader.close();\noutputText = writer.toString();\n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.ncbi.PubMedEFetchWorker",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.PubMedESearchWorker.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.PubMedESearchWorker.json
index bd29f82..22bb4db 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.PubMedESearchWorker.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ncbi.PubMedESearchWorker.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "if ((term == void) || (term == null) || term.equals(\"\")) {\n\tthrow new RunTimeException(\"port term must have a non-empty value\");\n}\n\nURL url = new URL (\"http://eutils.ncbi.nlm.nih.gov/entrez/eutils/esearch.fcgi?db=pubmed\" +\n(field == void ? \"\" : (\"&field=\" + field)) +\n(retstart == void ? \"\" : (\"&retstart=\" + retstart)) +\n(retmax == void ? \"\" : (\"&retmax=\" + retmax)) +\n(mindate == void ? \"\" : (\"&mindate=\" + mindate)) +\n(maxdate == void ? \"\" : (\"&maxdate=\" + maxdate)) +\n\"&rettype=\" + (rettype == void ? \"full\" : rettype) +\n\"&retmode=\" + (retmode == void ? \"xml\" : retmode) +\n\"&tool=taverna\" +\n\"&term=\" + term);\n\nBufferedReader reader = new BufferedReader (new InputStreamReader(url.openStream()));\nStringWriter writer = new StringWriter();\n\nchar[] buffer = new char[1024];\n while (true) {\n int r = reader.read(buffer);\n if (r <= 0) {\n break;\n }\n writer.write(buffer, 0, r);\n }\nreader.close();\noutputText = writer.toString();\n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.ncbi.PubMedESearchWorker",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.net.BrowseUrl.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.net.BrowseUrl.json
index 1a2155e..f384038 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.net.BrowseUrl.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.net.BrowseUrl.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "import java.awt.Desktop;\nimport java.net.URI;\n\nif ((url == void) || (url == null)) {\n\tthrow new RuntimeException(\"Url must be specified\");\n}\n\nURI uri = null;\n\nuri = new URI(url);\n\nDesktop.getDesktop().browse(uri);",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.net.BrowseUrl",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.net.ExtractHeader.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.net.ExtractHeader.json
index 0e510fa..79e1596 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.net.ExtractHeader.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.net.ExtractHeader.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "if ((headers == void) || (headers == null)) {\n\tthrow new RuntimeException(\"Headers must be specified\");\n}\n\nif ((header_key == void) || (header_key == null)) {\n\tthrow new RuntimeException(\"Header_key must be specified\");\n}\n\nString header_value = \"\";\nif (!header_key.endsWith(\":\")) {\n\theader_key += \":\";\n}\nfor (String h : headers) {\n\tif (h.startsWith(header_key)) {\n\t\theader_value = h.substring(header_key.length());\n\t\theader_value = header_value.trim();\n\t\tbreak;\n\t}\n}",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.net.ExtractHeader",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ui.AskWorker.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ui.AskWorker.json
index c2095cc..bf44f41 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ui.AskWorker.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ui.AskWorker.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "import javax.swing.JOptionPane;\n\nanswer = JOptionPane.showInputDialog(null, (message == void ? null : message), (title == void ? null : title), JOptionPane.QUESTION_MESSAGE);\n\n\n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.ui.AskWorker",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ui.ChooseWorker.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ui.ChooseWorker.json
index 0410fc7..4a49d4b 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ui.ChooseWorker.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ui.ChooseWorker.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "import javax.swing.BoxLayout;\nimport javax.swing.ButtonGroup;\nimport javax.swing.JLabel;\nimport javax.swing.JOptionPane;\nimport javax.swing.JPanel;\nimport javax.swing.JRadioButton;\n\nif ((selectionValues == void) || (selectionValues == null) || (selectionValues.isEmpty())) {\n throw new RuntimeException(\"selectionValues must be specified and non-empty\");\n}\n\nButtonGroup group = new ButtonGroup();\nJPanel messagePanel = new JPanel();\nmessagePanel.setLayout(new BoxLayout(messagePanel,BoxLayout.Y_AXIS));\n\nmessagePanel.add(new JLabel((message == void ? null : message)));\n\t\t\nJRadioButton[] buttonArray = new JRadioButton[selectionValues.size()];\nfor (int i = 0; i < buttonArray.length; i++) {\t\t\t\n\tbuttonArray[i] = new JRadioButton(selectionValues.get(i));\n\tif (i==0) buttonArray[i].setSelected(true);\n\tgroup.add(buttonArray[i]);\n\tmessagePanel.add(buttonArray[i]);\n}\t\t\t\t\n\nJOptionPane.showOptionDialog(null, messagePanel, (title == void ? null : title),\n\t\tJOptionPane.YES_NO_CANCEL_OPTION, JOptionPane.QUESTION_MESSAGE, null, new Object[]{\"OK\"}, null);\n\t\t\nString answer=\"\";\nfor (JRadioButton button : buttonArray) {\n\tif (button.isSelected()) {\n\t\tanswer=button.getText();\n\t}\n}\n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.ui.ChooseWorker",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ui.SelectFileWorker.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ui.SelectFileWorker.json
index 1d71cef..49e5c67 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ui.SelectFileWorker.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ui.SelectFileWorker.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "import java.awt.CardLayout;\nimport java.awt.Image;\nimport java.awt.Toolkit;\nimport java.io.File;\nimport java.util.HashMap;\nimport java.util.Map;\n\nimport javax.swing.ImageIcon;\nimport javax.swing.JEditorPane;\nimport javax.swing.JFileChooser;\nimport javax.swing.JLabel;\nimport javax.swing.JPanel;\nimport javax.swing.filechooser.FileFilter;\n\nclass FileExtFilter extends FileFilter {\n\n\tpublic FileExtFilter(String ext, String label, boolean includeDir) {\n\t\tthis.ext = ext;\n\t\tthis.label = label;\n\t\tthis.includeDir = includeDir;\n\t}\n\n\tpublic String getDescription() {\n\t\treturn this.label;\n\t}\n\n\tpublic boolean accept(File file) {\n\t\tif (file.isDirectory() && includeDir) {\n\t\t\treturn true;\n\t\t} else {\n\t\t\treturn file.getName().endsWith(this.ext);\n\t\t}\n\t}\n\n\tString ext, label;\n\n\tboolean includeDir;\n}\n\nif (title == void) {\n\ttitle = null;\n}\n\nif ((fileExtensions == void) || (fileExtensions == null)) {\n\tfileExtensions = \"\";\n}\n\nif ((fileExtLabels == void) || (fileExtLabels == null)) {\n\tfileExtLabels = \"\";\n}\n\nJFileChooser chooser = new JFileChooser();\nchooser.setDialogTitle(title);\n\nString[] fileTypeList = fileExtensions.split(\",\");\nString[] filterLabelList = fileExtLabels.split(\",\");\n\nif (fileTypeList != null && filterLabelList != null && fileTypeList.length != filterLabelList.length) {\n\tthrow new RuntimeException(\"The list of extensions and file filter labels must be the same length\");\n}\n\n// create the file filters\nfor (int i = 0; i < fileTypeList.length; i++) {\n\tFileExtFilter filter = new FileExtFilter(fileTypeList[i], filterLabelList[i], true);\n\tchooser.setFileFilter(filter);\n}\n\nchooser.showOpenDialog(null);\nFile file = chooser.getSelectedFile();\nselectedFile = file.getAbsolutePath();\n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.ui.SelectFileWorker",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ui.SelectWorker.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ui.SelectWorker.json
index 6c287b6..53a96d5 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ui.SelectWorker.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ui.SelectWorker.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "import javax.swing.JOptionPane;\n\nif ((valueList == void) || (valueList == null) || (valueList.isEmpty())) {\n throw new RuntimeException(\"valueList must be specified and non-empty\");\n}\n\nanswer = (String) JOptionPane.showInputDialog(null, (message == void ? null : message), (title == void ? null : title), JOptionPane.QUESTION_MESSAGE, null, valueList.toArray(), valueList.get(0));\n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.ui.SelectWorker",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ui.TellWorker.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ui.TellWorker.json
index 8037a42..ec865e0 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ui.TellWorker.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ui.TellWorker.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "import javax.swing.JOptionPane;\n\nJOptionPane.showMessageDialog(null, (message == void ? null : message), (title == void ? null : title),\tJOptionPane.INFORMATION_MESSAGE);\n\nanswer = \"answer\";\n\n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.ui.TellWorker",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ui.WarnWorker.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ui.WarnWorker.json
index eaa8c93..4f4341c 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ui.WarnWorker.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.ui.WarnWorker.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "import javax.swing.JOptionPane;\n\nJOptionPane.showMessageDialog(null, (message == void ? null : message), (title == void ? null : title),\tJOptionPane.WARNING_MESSAGE);\n\nanswer = \"answer\";\n \n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.ui.WarnWorker",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.xml.XPathTextWorker.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.xml.XPathTextWorker.json
index 3fa2385..f9ef3d2 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.xml.XPathTextWorker.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.xml.XPathTextWorker.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "import org.dom4j.Document;\nimport org.dom4j.Node;\nimport org.dom4j.io.SAXReader;\n\nSAXReader reader = new SAXReader(false);\nreader.setIncludeInternalDTDDeclarations(false);\nreader.setIncludeExternalDTDDeclarations(false);\n\nDocument document = reader.read(new StringReader(xmltext));\nList nodelist = document.selectNodes(xpath);\n\n// Process the elements in the nodelist\nArrayList outputList = new ArrayList();\nArrayList outputXmlList = new ArrayList();\n\nString val = null;\nString xmlVal = null;\nfor (Iterator iter = nodelist.iterator(); iter.hasNext();) {\n\tNode element = (Node) iter.next();\n\txmlVal = element.asXML();\n\tval = element.getStringValue();\n\tif (val != null && !val.equals(\"\")) {\n\t\toutputList.add(val);\n\t\toutputXmlList.add(xmlVal);\n\t}\n\n}\n\nList nodelist=outputList;\nList nodelistAsXML=outputXmlList;",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.xml.XPathTextWorker",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.xml.XSLTWorker.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.xml.XSLTWorker.json
index 09aff0d..6503e11 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.xml.XSLTWorker.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.xml.XSLTWorker.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "import java.io.BufferedReader;\nimport java.io.BufferedWriter;\nimport java.io.FileInputStream;\nimport java.io.FileNotFoundException;\nimport java.io.FileReader;\nimport java.io.FileWriter;\nimport java.io.IOException;\nimport java.io.InputStreamReader;\nimport java.io.OutputStreamWriter;\nimport java.io.StringWriter;\nimport java.io.Writer;\nimport java.net.URL;\nimport java.util.HashMap;\nimport java.util.Map;\n\nimport javax.xml.transform.Result;\nimport javax.xml.transform.Source;\nimport javax.xml.transform.SourceLocator;\nimport javax.xml.transform.Templates;\nimport javax.xml.transform.Transformer;\nimport javax.xml.transform.TransformerConfigurationException;\nimport javax.xml.transform.TransformerException;\nimport javax.xml.transform.TransformerFactory;\nimport javax.xml.transform.stream.StreamResult;\nimport javax.xml.transform.stream.StreamSource;\n\nBufferedReader getReader (String fileUrl) throws IOException {\n\t\tInputStreamReader reader;\n\t\ttry {\n\t\t\treader = new FileReader(fileUrl);\n\t\t}\n\t\tcatch (FileNotFoundException e) {\n\t\t\t// try a real URL instead\n\t\t\tURL url = new URL(fileUrl);\n\t\t\treader = new InputStreamReader (url.openStream());\n\t\t}\n\t\treturn new BufferedReader(reader);\n\t}\n\t\nBufferedWriter getWriter (String fileUrl) throws IOException {\n\t\tWriter writer;\n\t\ttry {\n\t\t\twriter = new FileWriter(fileUrl);\n\t\t}\n\t\tcatch (FileNotFoundException e) {\n\t\t\t// try a real URL instead\n\t\t\tURL url = new URL(fileUrl);\n\t\t\twriter = new OutputStreamWriter (url.openConnection().getOutputStream());\n\t\t}\n\t\treturn new BufferedWriter(writer);\n\t}\n\t\nString xslFilename = xslFileURL;\nString outFilename;\nif (outFileURL != void) {\n outFilename = outFileURL;\n}\n\nString ext;\nif (outputExt != void) {\n ext = outputExt;\n}\n\nif (((outFilename == null) || outFilename.equals(\"\")) && (ext != null)) {\n\t\toutFilename = inFileURL.substring(0, inFileURL.indexOf(\".\")+1) + ext;\n}\n\n// Create transformer factory\nTransformerFactory factory = TransformerFactory.newInstance();\n\n// Use the factory to create a template containing the xsl file\nTemplates template = factory.newTemplates(new StreamSource(getReader(xslFilename)));\n\n// Use the template to create a transformer\nTransformer xformer = template.newTransformer();\n\n// Prepare the input and output files\nReader sourceReader = getReader(inFileURL);\nSource source = new StreamSource(sourceReader);\nStringWriter resultStr = new StringWriter();\nResult result = new StreamResult(resultStr);\n\n// Apply the xsl file to the source file and write the result to the\n// output file\nxformer.transform(source, result);\n\noutputStr = resultStr.toString();\n\nif ((outFilename != null) && !outFilename.equals(\"\")) {\n\n\tBufferedWriter out = getWriter(outFilename);\n\n\tout.write(outputStr);\n\tout.close();\n}\nsourceReader.close();\n",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.xml.XSLTWorker",
diff --git a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.xml.XSLTWorkerWithParameters.json b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.xml.XSLTWorkerWithParameters.json
index 0800c76..5dbfb55 100644
--- a/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.xml.XSLTWorkerWithParameters.json
+++ b/taverna-localworker-activity-ui/src/main/resources/net.sourceforge.taverna.scuflworkers.xml.XSLTWorkerWithParameters.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "//From a proposal by Mikolaj Rybinski\nimport javax.xml.transform.Source;\nimport javax.xml.transform.Transformer;\nimport javax.xml.transform.TransformerFactory;\nimport javax.xml.transform.stream.StreamResult;\nimport javax.xml.transform.stream.StreamSource;\n\nparam(paramstr) {\n nameAndValue = paramstr.split(\"=\");\n if (nameAndValue.length != 2) {\n throw new RuntimeException(\"Wrong parameter format: \\\"\" + paramstr + \"\\\".\");\n }\n name = nameAndValue[0].trim();\n value = nameAndValue[1].trim();\n return this;\n}\n\nif ((sourceString == void) || (sourceString == null)) {\n throw new RuntimeException(\"sourceString must be specified\");\n}\n\nif ((xsltString == void) || (xsltString == null)) {\n throw new RuntimeException(\"xsltString must be specified\");\n}\n\nSource inSource = new StreamSource(new StringReader(sourceString));\nSource xslSource = new StreamSource(new StringReader(xsltString));\n\n// the factory pattern supports different XSLT processors\n// e.g. set the \"javax.xml.transform.TransformerFactory\" system property\nTransformerFactory tnfFact = TransformerFactory.newInstance();\nTransformer tnf = tnfFact.newTransformer(xslSource);\n\nif (paramList != void) {\n for (String paramstr : paramList) {\n p = param(paramstr);\n tnf.setParameter(p.name, p.value);\n }\n}\n\nWriter outputWriter = new StringWriter();\ntnf.transform(inSource, new StreamResult(outputWriter));\noutputString = outputWriter.toString();",
"localworkerName" : "net.sourceforge.taverna.scuflworkers.xml.XSLTWorkerWithParameters",
diff --git a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.ByteArrayToString.json b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.ByteArrayToString.json
index ae7f934..dab48a0 100644
--- a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.ByteArrayToString.json
+++ b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.ByteArrayToString.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "if ((bytes == void) || (bytes == null)) {\n\tthrow new RuntimeException(\"The 'bytes' parameter must be specified\");\n}\nif (encoding == void) {\n\tstring = new String(bytes);\n} else {\n\tstring = new String(bytes, encoding);\n}\n",
"localworkerName" : "org.embl.ebi.escience.scuflworkers.java.ByteArrayToString",
diff --git a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.DecodeBase64.json b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.DecodeBase64.json
index 1cb0f62..f0ffa20 100644
--- a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.DecodeBase64.json
+++ b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.DecodeBase64.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "import org.apache.commons.codec.binary.Base64;\n\nbytes = Base64.decodeBase64(base64.getBytes());\n",
"localworkerName" : "org.embl.ebi.escience.scuflworkers.java.DecodeBase64",
diff --git a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.EchoList.json b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.EchoList.json
index aa0d198..79e38b5 100644
--- a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.EchoList.json
+++ b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.EchoList.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "outputlist = inputlist;",
"localworkerName" : "org.embl.ebi.escience.scuflworkers.java.EchoList",
diff --git a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.EmitLotsOfStrings.json b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.EmitLotsOfStrings.json
index 4afc1f8..20834a2 100644
--- a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.EmitLotsOfStrings.json
+++ b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.EmitLotsOfStrings.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "List strings = new ArrayList();\nfor (int i = 0; i < 40; i++) {\n\tstrings.add(\"String\" + i);\n}\n",
"localworkerName" : "org.embl.ebi.escience.scuflworkers.java.EmitLotsOfStrings",
diff --git a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.EncodeBase64.json b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.EncodeBase64.json
index 5cbd786..cf0310b 100644
--- a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.EncodeBase64.json
+++ b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.EncodeBase64.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "import org.apache.commons.codec.binary.Base64;\n\nbase64 = new String(Base64.encodeBase64(bytes));",
"localworkerName" : "org.embl.ebi.escience.scuflworkers.java.EncodeBase64",
diff --git a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.ExtractImageLinks.json b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.ExtractImageLinks.json
index 2a23a47..987c0dd 100644
--- a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.ExtractImageLinks.json
+++ b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.ExtractImageLinks.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "String lowerCaseContent = document.toLowerCase();\nint index = 0;\nList imagelinks = new ArrayList();\nwhile ((index = lowerCaseContent.indexOf(\"<img\", index)) != -1) {\n\tif ((index = lowerCaseContent.indexOf(\"src\", index)) == -1)\n\t\tbreak;\n\tif ((index = lowerCaseContent.indexOf(\"=\", index)) == -1)\n\t\tbreak;\n\tindex++;\n\tString remaining = document.substring(index);\n\tStringTokenizer st = new StringTokenizer(remaining, \"\\t\\n\\r\\\">#\");\n\tString strLink = st.nextToken();\n\timagelinks.add(strLink);\n}\n\n",
"localworkerName" : "org.embl.ebi.escience.scuflworkers.java.ExtractImageLinks",
diff --git a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.FilterStringList.json b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.FilterStringList.json
index 0f26e3e..0998e4d 100644
--- a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.FilterStringList.json
+++ b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.FilterStringList.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "filteredlist = new ArrayList();\nfor (Iterator i = stringlist.iterator(); i.hasNext();) {\n\tString item = (String) i.next();\n\tif (item.matches(regex)) {\n\t\tfilteredlist.add(item);\n\t}\n}\n",
"localworkerName" : "org.embl.ebi.escience.scuflworkers.java.FilterStringList",
diff --git a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.FlattenList.json b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.FlattenList.json
index 4992e0b..ae6c6c9 100644
--- a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.FlattenList.json
+++ b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.FlattenList.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "flatten(inputs, outputs, depth) {\n\tfor (i = inputs.iterator(); i.hasNext();) {\n\t element = i.next();\n\t\tif (element instanceof Collection && depth > 0) {\n\t\t\tflatten(element, outputs, depth - 1);\n\t\t} else {\n\t\t\toutputs.add(element);\n\t\t}\n\t}\n}\n\noutputlist = new ArrayList();\n\nflatten(inputlist, outputlist, 1);",
"localworkerName" : "org.embl.ebi.escience.scuflworkers.java.FlattenList",
diff --git a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.PadNumber.json b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.PadNumber.json
index 37828ea..16a7d87 100644
--- a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.PadNumber.json
+++ b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.PadNumber.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "int targetLengthInt = 7;\nif (targetlength != void) {\n\ttargetLengthInt = Integer.parseInt(targetlength);\n}\nint currentLength = input.length();\nwhile (input.length() < targetLengthInt) {\n\tinput = \"0\" + input;\n}\npadded = input;",
"localworkerName" : "org.embl.ebi.escience.scuflworkers.java.PadNumber",
diff --git a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.RegularExpressionStringList.json b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.RegularExpressionStringList.json
index 86378fb..3b8cb2a 100644
--- a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.RegularExpressionStringList.json
+++ b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.RegularExpressionStringList.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "import java.util.regex.*;\n\nfilteredlist = new ArrayList();\nPattern thePat = Pattern.compile(regex);\nint theGroup = Integer.parseInt(group);\n\nfor (Iterator i = stringlist.iterator(); i.hasNext();) {\n\tString item = (String) i.next();\n\tMatcher matcher = thePat.matcher(item);\n\n\tif (matcher.find()) {\n\t\tfilteredlist.add(matcher.group(theGroup));\n\t}\n}\n",
"localworkerName" : "org.embl.ebi.escience.scuflworkers.java.RegularExpressionStringList",
diff --git a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.SendEmail.json b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.SendEmail.json
index 9a7365d..f756986 100644
--- a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.SendEmail.json
+++ b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.SendEmail.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "import javax.mail.Message;\nimport javax.mail.Session;\nimport javax.mail.Transport;\nimport javax.mail.internet.MimeMessage;\nimport javax.mail.internet.InternetAddress;\n\nif (subject == void) {\n\tsubject = \"No subject\";\n}\nif (body == void) {\n\tthrow new Exception(\"No body specified for message\");\n}\n\nProperties mailProps = System.getProperties();\nif (smtpserver != void) {\n\tmailProps.put(\"mail.smtp.host\", smtpserver);\n}\n\nSession session = Session.getDefaultInstance(mailProps, null);\nMimeMessage message = new MimeMessage(session);\nmessage.setFrom(new InternetAddress(from));\nmessage.addRecipient(Message.RecipientType.TO, new InternetAddress(to));\nmessage.setSubject(subject);\nmessage.setText(body);\nTransport.send(message);\n",
"localworkerName" : "org.embl.ebi.escience.scuflworkers.java.SendEmail",
diff --git a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.SplitByRegex.json b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.SplitByRegex.json
index afbdc78..b3d8d4d 100644
--- a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.SplitByRegex.json
+++ b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.SplitByRegex.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "List split = new ArrayList();\nif (!string.equals(\"\")) {\n\tString regexString = \",\";\n\tif (regex != void) {\n\t\tregexString = regex;\n\t}\n\tString[] result = string.split(regexString);\n\tfor (int i = 0; i < result.length; i++) {\n\t\tsplit.add(result[i]);\n\t}\n}\n",
"localworkerName" : "org.embl.ebi.escience.scuflworkers.java.SplitByRegex",
diff --git a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.StringConcat.json b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.StringConcat.json
index 24a3fa9..c778521 100644
--- a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.StringConcat.json
+++ b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.StringConcat.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "output = string1 + string2;",
"localworkerName" : "org.embl.ebi.escience.scuflworkers.java.StringConcat",
diff --git a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.StringListMerge.json b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.StringListMerge.json
index a0b860f..ed91d57 100644
--- a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.StringListMerge.json
+++ b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.StringListMerge.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "String seperatorString = \"\\n\";\nif (seperator != void) {\n\tseperatorString = seperator;\n}\nStringBuffer sb = new StringBuffer();\nfor (Iterator i = stringlist.iterator(); i.hasNext();) {\n\tString item = (String) i.next();\n\tsb.append(item);\n\tif (i.hasNext()) {\n\t\tsb.append(seperatorString);\n\t}\n}\nconcatenated = sb.toString();\n",
"localworkerName" : "org.embl.ebi.escience.scuflworkers.java.StringListMerge",
diff --git a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.StringSetDifference.json b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.StringSetDifference.json
index c844322..cea76a4 100644
--- a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.StringSetDifference.json
+++ b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.StringSetDifference.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "List difference = new ArrayList();\nfor (Iterator i = list1.iterator(); i.hasNext();) {\n\tObject o = i.next();\n\tif (!list2.contains(o)) {\n\t\tdifference.add(o);\n\t}\n}\nfor (Iterator i = list2.iterator(); i.hasNext();) {\n\tObject o = i.next();\n\tif (!list1.contains(o)) {\n\t\tdifference.add(o);\n\t}\n}\n",
"localworkerName" : "org.embl.ebi.escience.scuflworkers.java.StringSetDifference",
diff --git a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.StringSetIntersection.json b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.StringSetIntersection.json
index 0404922..e4a7e71 100644
--- a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.StringSetIntersection.json
+++ b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.StringSetIntersection.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "List intersection = new ArrayList();\nfor (Iterator i = list1.iterator(); i.hasNext();) {\n\tObject o = i.next();\n\tif (list2.contains(o)) {\n\t\tintersection.add(o);\n\t}\n}\n",
"localworkerName" : "org.embl.ebi.escience.scuflworkers.java.StringSetIntersection",
diff --git a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.StringSetUnion.json b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.StringSetUnion.json
index 25960be..21ce9d7 100644
--- a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.StringSetUnion.json
+++ b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.StringSetUnion.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "Set results = new HashSet();\nresults.addAll(list1);\nresults.addAll(list2);\nList union = new ArrayList();\nunion.addAll(results);\n",
"localworkerName" : "org.embl.ebi.escience.scuflworkers.java.StringSetUnion",
diff --git a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.StringStripDuplicates.json b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.StringStripDuplicates.json
index c5fecee..a630dc4 100644
--- a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.StringStripDuplicates.json
+++ b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.StringStripDuplicates.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "List strippedlist = new ArrayList();\nfor (Iterator i = stringlist.iterator(); i.hasNext();) {\n\tString item = (String) i.next();\n\tif (strippedlist.contains(item) == false) {\n\t\tstrippedlist.add(item);\n\t}\n}\n",
"localworkerName" : "org.embl.ebi.escience.scuflworkers.java.StringStripDuplicates",
diff --git a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.TestAlwaysFailingProcessor.json b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.TestAlwaysFailingProcessor.json
index 4a5b7d8..d161aa2 100644
--- a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.TestAlwaysFailingProcessor.json
+++ b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.TestAlwaysFailingProcessor.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "throw new Exception(\"This script fails\");",
"localworkerName" : "org.embl.ebi.escience.scuflworkers.java.TestAlwaysFailingProcessor",
diff --git a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.TestSometimesFails.json b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.TestSometimesFails.json
index 9ecf11d..09737ed 100644
--- a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.TestSometimesFails.json
+++ b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.TestSometimesFails.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "import java.util.Random;\n\nRandom r = new Random();\n\nif ((r.nextInt() % 4) == 0) {\n\tthrow new RuntimeException(\"Fails every four runs!\");\n}\n\nout = in;",
"localworkerName" : "org.embl.ebi.escience.scuflworkers.java.TestSometimesFails",
diff --git a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.WebImageFetcher.json b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.WebImageFetcher.json
index a65b448..2a274d1 100644
--- a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.WebImageFetcher.json
+++ b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.WebImageFetcher.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "if ((url == void) || (url == null)) {\n\tthrow new RuntimeException(\"The url must be specified\");\n}\n\nURL inputURL = null;\nif (base != void) {\n\tinputURL = new URL(new URL(base), url);\n} else {\n\tinputURL = new URL(url);\n}\n\nint bytesRead = 0;\nint totalBytesRead = 0;\nInputStream is = inputURL.openStream();\nByteArrayOutputStream os = new ByteArrayOutputStream();\nbyte[] buffer = new byte[2048];\nwhile (true) {\n\tbytesRead = is.read(buffer);\n\tif (bytesRead == -1) {\n\t\tbreak;\t\n\t}\n\n\tos.write(buffer, 0, bytesRead);\n}\n\nimage = os.toByteArray();\nis.close();\nos.close();\n",
"localworkerName" : "org.embl.ebi.escience.scuflworkers.java.WebImageFetcher",
diff --git a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.WebPageFetcher.json b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.WebPageFetcher.json
index ad7a5b6..d2ed0b2 100644
--- a/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.WebPageFetcher.json
+++ b/taverna-localworker-activity-ui/src/main/resources/org.embl.ebi.escience.scuflworkers.java.WebPageFetcher.json
@@ -1,4 +1,7 @@
{
+ "http://purl.org/dc/terms/rights": "Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to You under the Apache License, Version 2.0 (the 'License'); you may not use this file except in compliance with the License. You may obtain a copy of the License at http://www.apache.org/licenses/LICENSE-2.0 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an 'AS IS' BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.",
+ "http://purl.org/dc/terms/license": {"@id": "http://www.apache.org/licenses/LICENSE-2.0"},
+
"classLoaderSharing" : "workflow",
"script" : "if ((url == void) || (url == null)) {\n\tthrow new RuntimeException(\"The url must be specified\");\n}\n\nURL inputURL = null;\nif (base != void) {\n inputURL = new URL(new URL(base), url);\n}\nelse {\n inputURL = new URL(url);\n}\nURLConnection con = inputURL.openConnection();\nInputStream in = con.getInputStream();\n\nStringBuffer result = new StringBuffer();\nBufferedReader reader;\n\nString encoding = con.getContentEncoding();\nif (encoding == null) {\n reader = new BufferedReader(new InputStreamReader(in));\n} else {\n reader = new BufferedReader(new InputStreamReader(in, encoding));\n}\nString line = null;\nString NEWLINE = System.getProperty(\"line.separator\");\nwhile ((line = reader.readLine()) != null) {\n\tresult.append(line);\n\tresult.append(NEWLINE);\n}\n\nreader.close();\ncontents = result.toString();\n",
"localworkerName" : "org.embl.ebi.escience.scuflworkers.java.WebPageFetcher",
