+
+ /**
+ * set minimum number of sequences allowed in a partition. Default is 1
+ * sequence.
+ *
+ * @param i
+ * (number greater than 1)
+ */
+ public void setMinsize(int i)
+ {
+ if (minsize >= 1)
+ {
+ minsize = i;
+ }
+ else
+ {
+ minsize = 1;
+ }
+ }
+
+ @Override
+ public List<String> getURLEncodedParameter()
+ {
+ ArrayList<String> prms = new ArrayList<>();
+ super.addBaseParams(prms);
+ prms.add("minsize='" + minsize + "'");
+ prms.add("sep='" + sep + "'");
+ if (type != null)
+ {
+ prms.add("type='" + type + "'");
+ }
+ return prms;
+ }
+
+ @Override
+ public String getURLtokenPrefix()
+ {
+ return "PARTITION";
+ }
+
+ @Override
+ public boolean configureProperty(String tok, String val,
+ StringBuffer warnings)
+ {
+
+ if (tok.startsWith("sep"))
+ {
+ sep = val;
+ return true;
+ }
+ if (tok.startsWith("minsize"))
+ {
+ try
+ {
+ minsize = Integer.valueOf(val);
+ if (minsize >= 0)
+ {
+ return true;
+ }
+ } catch (Exception x)
+ {
+
+ }
+ warnings.append("Invalid minsize value '" + val
+ + "'. Must be a positive integer.\n");
+ }
+ if (tok.startsWith("type"))
+ {
+ try
+ {
+ type = molType.valueOf(val);
+ return true;
+ } catch (Exception x)
+ {
+ warnings.append(
+ "Invalid molecule type '" + val + "'. Must be one of (");
+ for (molType v : molType.values())
+ {
+ warnings.append(" " + v);
+ }
+ warnings.append(")\n");
+ }
+ }
+ return false;
+ }
+
+ @Override
+ public List<OptionI> getOptions()
+ {
+ List<OptionI> lst = getBaseOptions();
+ lst.add(new Option("sep",
+ "Separator character between elements of vector", true, ",",
+ sep, Arrays.asList(new String[]
+ { " ", ",", ";", "\t", "|" }), null));
+ lst.add(new IntegerParameter("minsize",
+ "Minimum size of partition allowed by service", true, 1,
+ minsize, 1, 0));
+ lst.add(createMolTypeOption("type", "Sequence type", false, type,
+ molType.MIX));
+ return lst;
+ }
+
+}