+/*
+ * 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.datamodel;
+import java.awt.Color;
+
+import jalview.renderer.ContactGeometry.contactInterval;
+
/**
* helper class to compute min/max/mean for a range on a contact list
*
}
@Override
+ public int getPosition()
+ {
+ return clist.getPosition();
+ }
+
+ @Override
public double getContactAt(int column)
{
return clist.getContactAt(column);
@Override
public ContactRange getRangeFor(int from_column, int to_column)
{
+ // TODO: consider caching ContactRange for a particular call ?
if (clist instanceof ContactListI)
{
// clist may implement getRangeFor in a more efficient way, so use theirs
{
from_column = 0;
}
- if (to_column > getContactHeight())
+ if (to_column >= getContactHeight())
{
- to_column = getContactHeight();
+ to_column = getContactHeight() - 1;
}
ContactRange cr = new ContactRange();
cr.setFrom_column(from_column);
}
}
}
- if (tot > 0)
+ if (tot > 0 && to_column > from_column)
{
cr.setMean(tot / (1 + to_column - from_column));
}
return cr;
}
+ @Override
+ public int[] getMappedPositionsFor(int cStart, int cEnd)
+ {
+ return clist.getMappedPositionsFor(cStart, cEnd);
+ }
+
+ @Override
+ public Color getColourForGroup()
+ {
+ return clist.getColourForGroup();
+ }
}