/*
 * 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 jalview.ws.api.ServiceWithParameters;
import jalview.ws.jws2.JabaParamStore;
import jalview.ws.jws2.ParameterUtils;
import jalview.ws.params.ArgumentI;
import jalview.ws.params.WsParamSetI;

import java.util.List;

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 AAConSettings(boolean autoUpdate, ServiceWithParameters service2,
          WsParamSetI preset, List<ArgumentI> jobArgset)
  {
    super(service2, preset, jobArgset, autoUpdate);
  }

  @Override
  public String getWsParamFile()
  {
    List<Option> opts = null;
    if (jobArgset != null)
    {
      opts = JabaParamStore.getJabafromJwsArgs(jobArgset);
    }
    else
    {
      if (preset != null)
      {
        opts = JabaParamStore.getJabafromJwsArgs(preset.getArguments());
      }
    }
    if (opts == null || opts.size() == 0)
    {
      return "";
    }
    StringBuffer pset = new StringBuffer();
    for (String ps : ParameterUtils.writeParameterSet(opts, " "))
    {
      pset.append(ps);
      pset.append("\n");
    }
    return pset.toString();
  }
}