package jalview.util;
import static jalview.util.UrlConstants.DB_ACCESSION;
-import static jalview.util.UrlConstants.EMBLEBI_STRING;
+import static jalview.util.UrlConstants.DELIM;
+//import static jalview.util.UrlConstants.EMBLEBI_LABEL;
+//import static jalview.util.UrlConstants.EMBLEBI_STRING;
+import static jalview.util.UrlConstants.SEP;
import static jalview.util.UrlConstants.SEQUENCE_ID;
-import static jalview.util.UrlConstants.SRS_STRING;
+//import static jalview.util.UrlConstants.SRS_LABEL;
import java.util.HashMap;
import java.util.Iterator;
* @author $author$
* @version $Revision$
*/
-public class CustomUrlProvider implements UrlProviderI
+public class CustomUrlProvider extends UrlProviderImpl
{
+ // minimum length of substitution in url link string
+ private static final int MIN_SUBST_LENGTH = 4;
+
+ // Default sequence URL link label for SRS
+ private static final String SRS_LABEL = "SRS";
+
+ // map of string ids to urlLinks
private HashMap<String, UrlLink> urls;
+ /**
+ * Construct UrlProvider for custom (user-entered) URLs
+ *
+ * @param cachedUrlList
+ * list of URLs in form stored in Cache. i.e. SEP delimited string
+ */
public CustomUrlProvider(String cachedUrlList)
{
try
{
- StringTokenizer st = new StringTokenizer(cachedUrlList, "|");
+ urls = new HashMap<String, UrlLink>();
+
+ // cachedUrlList is in form <label>|<url>|<label>|<url>...
+ // parse cachedUrlList into labels (used as id) and url links
+ StringTokenizer st = new StringTokenizer(cachedUrlList, SEP);
while (st.hasMoreElements())
{
String name = st.nextToken();
String url = st.nextToken();
// check for '|' within a regex
- int rxstart = url.indexOf("$" + DB_ACCESSION + "$");
+ int rxstart = url.indexOf(DELIM + DB_ACCESSION + DELIM);
if (rxstart == -1)
{
- rxstart = url.indexOf("$" + SEQUENCE_ID + "$");
+ rxstart = url.indexOf(DELIM + SEQUENCE_ID + DELIM);
}
- while (rxstart == -1 && url.indexOf("/=$") == -1)
+ while (rxstart == -1 && url.indexOf("/=" + DELIM) == -1)
{
- url = url + "|" + st.nextToken();
+ url = url + SEP + st.nextToken();
}
- urls.put(name, new UrlLink(url));
- // sequenceURLLinks.addElement(name + "|" + url);
+ urls.put(name, new UrlLink(name + SEP + url));
}
} catch (Exception ex)
{
System.out.println(ex + "\nError parsing sequence links");
}
+ upgradeOldLinks();
- // upgrade old SRS link
- String srs_key = SRS_STRING.split("\\|")[0];
- if (urls.containsKey(srs_key))
+ }
+
+ /**
+ * Construct UrlProvider for custom (user-entered) URLs
+ *
+ * @param urlList
+ * list of URLs as (label,url) pairs
+ */
+ public CustomUrlProvider(Map<String, String> urlList)
+ {
+ try
{
- urls.remove(srs_key);
- urls.put(EMBLEBI_STRING.split("//|")[0],
- new UrlLink(EMBLEBI_STRING.split("//|")[1]));
+ urls = new HashMap<String, UrlLink>();
+ Iterator<Map.Entry<String, String>> it = urlList.entrySet()
+ .iterator();
+ while (it.hasNext())
+ {
+ Map.Entry<String, String> pair = it.next();
+ urls.put(pair.getKey(),
+ new UrlLink(pair.getKey() + SEP + pair.getValue()));
+ }
+ } catch (Exception ex)
+ {
+ System.out.println(ex + "\nError parsing sequence links");
}
+ upgradeOldLinks();
}
- @Override
- public HashMap<String, UrlLink> getUrlLinks()
+ private void upgradeOldLinks()
{
- // TODO Auto-generated method stub
- return null;
+ // upgrade old SRS link
+ if (urls.containsKey(SRS_LABEL))
+ {
+ urls.remove(SRS_LABEL);
+ urls.put(DEFAULT_LABEL, new UrlLink(DEFAULT_STRING));
+ }
}
@Override
- public void getLinksForDisplay(Vector<String> nameLinks,
- Vector<String> urlLinks)
+ public Vector<String> getLinksForDisplay()
{
+ Vector<String> links = new Vector<String>();
Iterator<Map.Entry<String, UrlLink>> it = urls.entrySet().iterator();
while (it.hasNext())
{
Map.Entry<String, UrlLink> pair = it.next();
- nameLinks.addElement(pair.getKey());
- urlLinks.addElement(pair.getValue().toString()); // TODO check this is
- // right
+ links.add(pair.getValue().toString());
}
+ return links;
}
@Override
- public String getDefaultUrl()
- {
- // TODO Auto-generated method stub
- return null;
- }
-
- @Override
- public void setDefaultUrl(String id)
+ public boolean setDefaultUrl(String id)
{
- // TODO Auto-generated method stub
-
+ if (urls.containsKey(id))
+ {
+ defaultUrl = id;
+ }
+ else
+ {
+ defaultUrl = null;
+ }
+ return urls.containsKey(id);
}
@Override
for (UrlLink link : urls.values())
{
links.append(link.toString());
- links.append("|");
+ links.append(SEP);
}
- // remove last "|"
+ // remove last SEP
links.setLength(links.length() - 1);
}
else
}
@Override
- public void setUrlLinks(String cachedUrl)
+ public String getDefaultUrl(String seqid)
{
- // TODO Auto-generated method stub, maybe don't need this? watch out for
- // superclass interactions
+ if (defaultUrl == null)
+ {
+ return null;
+ }
+ String url = null;
+ UrlLink urlLink = urls.get(defaultUrl);
+ String[] defaultUrls = urlLink.makeUrls(seqid, true);
+ if (defaultUrls == null || defaultUrls[0] == null
+ || defaultUrls[0].length() < MIN_SUBST_LENGTH)
+ {
+ url = null;
+ }
+ else
+ {
+ // just take first URL made from regex
+ url = defaultUrls[1];
+ }
+ return url;
}
@Override
- public void setUrlLinks(HashMap<String, UrlLink> links)
+ public String getDefaultTarget(String seqid)
{
- // TODO Auto-generated method stub
+ return urls.get(defaultUrl).getTarget();
+ }
+
+ @Override
+ public void setUrlLinks(Vector<String> names, Vector<String> urlstrings)
+ {
+ HashMap<String, UrlLink> newurls = new HashMap<String, UrlLink>();
+
+ // should check that lists are same length but this function is likely
+ // to change once the Preferences dialog is rebuilt
+
+ for (int i = 0; i < names.size(); ++i)
+ {
+ // don't allow MIRIAM ids as custom url names (as the links will overwrite
+ // each other)
+ // unlikely user would try to do this, but...
+ if (isMiriamId(names.elementAt(i)))
+ {
+ throw new IllegalArgumentException(MessageManager.formatMessage(
+ "exception.url_cannot_have_miriam_id", names.elementAt(i)));
+ }
+ // don't allow duplicate key names as entries will be overwritten
+ if (newurls.containsKey(names.elementAt(i)))
+ {
+ throw new IllegalArgumentException(MessageManager.formatMessage(
+ "exception.url_cannot_have_duplicate_id",
+ names.elementAt(i)));
+ }
+ newurls.put(names.elementAt(i), new UrlLink(names.elementAt(i) + SEP
+ + urlstrings.elementAt(i)));
+ }
+
+ // don't update until we're sure this set is ok
+ urls = newurls;
}
+ @Override
+ public String chooseDefaultUrl()
+ {
+ // unilaterally set the default id to the EMBL_EBI link
+
+ if (!urls.containsKey(DEFAULT_LABEL))
+ {
+ urls.put(DEFAULT_LABEL, new UrlLink(DEFAULT_STRING));
+ }
+ return DEFAULT_LABEL;
+ }
+
}
git://source.jalview.org / jalview.git / blobdiff