/*
* Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2)
* Copyright (C) 2014 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 .
* The Jalview Authors are detailed in the 'AUTHORS' file.
*/
package jalview.ws.rest;
import jalview.bin.Cache;
import jalview.io.FileParse;
import jalview.io.packed.DataProvider;
import jalview.io.packed.ParsePackedSet;
import jalview.io.packed.SimpleDataProvider;
import jalview.io.packed.DataProvider.JvDataType;
import jalview.util.MessageManager;
import jalview.ws.io.mime.JalviewMimeContentHandler;
import java.io.BufferedReader;
import java.io.IOException;
import java.io.InputStreamReader;
import java.io.UnsupportedEncodingException;
import java.util.ArrayList;
import java.util.List;
import org.apache.http.HttpEntity;
import org.apache.http.HttpResponse;
import org.apache.http.client.methods.HttpRequestBase;
import org.apache.http.entity.mime.MultipartEntity;
import org.apache.james.mime4j.MimeException;
import org.apache.james.mime4j.parser.MimeStreamParser;
/**
* data source instantiated from the response of an httpclient request.
*
* @author JimP
*
*/
public class HttpResultSet extends FileParse
{
private HttpRequestBase cachedRequest;
/**
* when set, indicates that en can be recreated by repeating the HttpRequest
* in cachedRequest
*/
boolean repeatable = false;
/**
* response that is to be parsed as jalview input data
*/
private HttpEntity en = null;
/**
* (sub)job that produced this result set.
*/
private RestJob restJob;
public HttpResultSet(RestJob rj, HttpResponse con, HttpRequestBase req)
throws IOException
{
super();
setDataName(rj.getJobId() + " Part " + rj.getJobnum());
restJob = rj;
cachedRequest = req;
initDataSource(con);
}
/**
* construct a set of dataproviders to parse a result set from this service
*
* @param resSet
* @return
*/
public List createResultDataProviders()
{
List dp = new ArrayList();
for (JvDataType type : restJob.rsd.getResultDataTypes())
{
dp.add(new SimpleDataProvider(type, this, null));
}
return dp;
}
/**
* parses the results of the service output.
*
* @return the result of ParsePackedSet.getAlignment()
* @throws Exception
* @throws Error
*/
public Object[] parseResultSet() throws Exception, Error
{
List dp = new ArrayList();
Object[] results = null;
if (en == null)
{
throw new Error(MessageManager.getString("error.implementation_error_need_to_have_httpresponse"));
}
jalview.io.packed.JalviewDataset ds = restJob.newJalviewDataset();
// Decide how we deal with content.
if (en instanceof MultipartEntity)
{
// Multipart messages should be properly typed, so we parse them as we go.
MultipartEntity mpe = (MultipartEntity) en;
// multipart
JalviewMimeContentHandler handler = new JalviewMimeContentHandler(ds);
MimeStreamParser parser = new MimeStreamParser();
parser.setContentHandler(handler);
try
{
parser.parse(mpe.getContent());
} catch (MimeException me)
{
error = true;
errormessage = "Couldn't parse message from web service.";
Cache.log.warn("Failed to parse MIME multipart content", me);
en.consumeContent();
}
return new ParsePackedSet().getAlignment(ds,
handler.getJalviewDataProviders());
}
else
{
// Need to use hints from rest service description.
dp = createResultDataProviders();
ParsePackedSet pps = new ParsePackedSet();
return pps.getAlignment(ds, dp);
}
}
private void initDataSource(HttpResponse con) throws IOException
{
en = con.getEntity();
repeatable = en.isRepeatable();
if (!(en instanceof MultipartEntity))
{
// assume content is simple text stream that can be read from
String enc = (en.getContentEncoding() == null) ? null : en
.getContentEncoding().getValue();
if (en.getContentType() != null)
{
Cache.log.debug("Result Type: " + en.getContentType().toString());
}
else
{
Cache.log.debug("No Result Type Specified.");
}
if (enc == null || enc.length() < 1)
{
Cache.log.debug("Assuming 'Default' Result Encoding.");
}
else
{
Cache.log.debug("Result Encoded as : " + enc);
}
// attempt to identify file and construct an appropriate DataSource
// identifier for it.
// try to parse
// Mime-Multipart or single content type will be expected.
// if (enc.equals(org.apache.http.client.utils.)))
InputStreamReader br = null;
try
{
br = (enc != null) ? new InputStreamReader(en.getContent(), enc)
: new InputStreamReader(en.getContent());
} catch (UnsupportedEncodingException e)
{
Cache.log.error("Can't handle encoding '" + enc
+ "' for response from webservice.", e);
en.consumeContent();
error = true;
errormessage = "Can't handle encoding for response from webservice";
return;
}
if (br != null)
{
dataIn = new BufferedReader(br);
error = false;
}
}
}
@Override
protected void finalize() throws Throwable
{
dataIn = null;
cachedRequest = null;
try
{
if (en != null)
{
en.consumeContent();
}
} catch (Exception e)
{
} catch (Error ex)
{
}
super.finalize();
}
/**
*
* @return the URL that this result set read data from.
*/
public String getUrl()
{
try
{
return cachedRequest.getURI().toURL().toString();
} catch (Exception x)
{
x.printStackTrace();
return null;
}
}
}