+/*
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
+ *
+ * This file is part of Jalview.
+ *
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
+ *
+ * Jalview is distributed in the hope that it will be useful, but
+ * WITHOUT ANY WARRANTY; without even the implied warranty
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR
+ * PURPOSE. See the GNU General Public License for more details.
+ *
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview. If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ */
package jalview.ws.jws2.dm;
-import java.util.ArrayList;
-import java.util.List;
-
-import compbio.metadata.Argument;
-import compbio.metadata.Option;
-import compbio.metadata.Preset;
-
+import jalview.util.MessageManager;
import jalview.ws.jws2.JabaParamStore;
import jalview.ws.jws2.JabaPreset;
import jalview.ws.jws2.ParameterUtils;
import jalview.ws.jws2.jabaws2.Jws2Instance;
import jalview.ws.params.ArgumentI;
-import jalview.ws.params.ParamManager;
import jalview.ws.params.WsParamSetI;
+import java.util.ArrayList;
+import java.util.List;
+
+import compbio.metadata.Argument;
+import compbio.metadata.Option;
+
/**
* preferences for running AACon service
*
* @author jprocter TODO: refactor to a generic 'last job and service run'
* container ?
*/
-public class AAConSettings extends jalview.ws.params.AutoCalcSetting
+public class AAConSettings extends jalview.ws.params.AutoCalcSetting
{
Jws2Instance service;
return;
}
// Try even harder to migrate arguments.
- throw new Error("Parameter migration not implemented yet");
+ throw new Error(
+ MessageManager
+ .getString("error.parameter_migration_not_implemented_yet"));
}
}
public List<Argument> getJobArgset()
{
- return jobArgset==null ? null : JabaParamStore.getJabafromJwsArgs(jobArgset);
+ return jobArgset == null ? null : JabaParamStore
+ .getJabafromJwsArgs(jobArgset);
}
public void setJobArgset(List<Argument> jobArgset)
{
// TODO: test if parameters valid for service
- this.jobArgset = jobArgset==null ? null : JabaParamStore.getJwsArgsfromJaba(jobArgset);
+ this.jobArgset = jobArgset == null ? null : JabaParamStore
+ .getJwsArgsfromJaba(jobArgset);
}
public String getWsParamFile()
{
- List<Option> opts=null;
- if (jobArgset!=null)
+ List<Option> opts = null;
+ if (jobArgset != null)
{
opts = JabaParamStore.getJabafromJwsArgs(jobArgset);
- } else {
- if (preset!=null)
+ }
+ else
+ {
+ if (preset != null)
{
opts = JabaParamStore.getJabafromJwsArgs(preset.getArguments());
}
}
- if (opts==null || opts.size()==0)
+ if (opts == null || opts.size() == 0)
{
return "";
}
- StringBuffer pset=new StringBuffer();
- for (String ps:ParameterUtils.writeParameterSet(opts, " "))
+ StringBuffer pset = new StringBuffer();
+ for (String ps : ParameterUtils.writeParameterSet(opts, " "))
{
- pset.append(ps); pset.append("\n");
+ pset.append(ps);
+ pset.append("\n");
}
return pset.toString();
}
{
return service.getServiceTypeURI();
}
+
@Override
public String[] getServiceURLs()
{