return isDataset;
}
- private Map<SequenceI, SequenceCollectionI> hiddenRepSequences;
- protected ColumnSelection colSel = new ColumnSelection();
+
+ // protected ColumnSelection colSel = new ColumnSelection();
public boolean autoCalculateConsensus = true;
{
residueShading.setConservation(hconservation);
}
- residueShading.alignmentChanged(alignment, hiddenRepSequences);
+ residueShading.alignmentChanged(alignment, getHiddenRepSequences());
}
/*
if (cs != null)
{
sg.getGroupColourScheme()
- .alignmentChanged(sg, hiddenRepSequences);
+.alignmentChanged(sg,
+ getHiddenRepSequences());
}
}
}
public void setHiddenColumns(ColumnSelection colsel)
{
- this.colSel = colsel;
+ posProps.setHiddenColumns(colsel);
+ // this.colSel = colsel;
}
@Override
public ColumnSelection getColumnSelection()
{
- return colSel;
+ return posProps.getColumnSelection();
+ // return colSel;
}
@Override
public void setColumnSelection(ColumnSelection colSel)
{
- this.colSel = colSel;
+ posProps.setColumnSelection(colSel);
+ /*this.colSel = colSel;
if (colSel != null)
{
updateHiddenColumns();
}
- isColSelChanged(true);
+ isColSelChanged(true);*/
}
/**
@Override
public Map<SequenceI, SequenceCollectionI> getHiddenRepSequences()
{
- return hiddenRepSequences;
+ return posProps.getHiddenRepSequences();
}
@Override
public void setHiddenRepSequences(
Map<SequenceI, SequenceCollectionI> hiddenRepSequences)
{
- this.hiddenRepSequences = hiddenRepSequences;
+ posProps.getHiddenRepSequences();
}
@Override
@Override
public boolean hasHiddenColumns()
{
- return colSel != null && colSel.hasHiddenColumns();
+ return posProps.hasHiddenColumns();
+ // return colSel != null && colSel.hasHiddenColumns();
}
public void updateHiddenColumns()
}
- private long sgrouphash = -1, colselhash = -1;
+ private long sgrouphash = -1;
/**
* checks current SelectionGroup against record of last hash value, and
*/
public boolean isColSelChanged(boolean b)
{
- int hc = (colSel == null || colSel.isEmpty()) ? -1 : colSel.hashCode();
+ return posProps.isColSelChanged(b);
+ /*int hc = (colSel == null || colSel.isEmpty()) ? -1 : colSel.hashCode();
if (hc != -1 && hc != colselhash)
{
if (b)
}
return true;
}
- return false;
+ return false;*/
}
@Override
// common hide/show column stuff
+ public void hideColumns(int start, int end)
+ {
+ posProps.hideColumns(start, end);
+ }
+
+ public void showColumn(int col)
+ {
+ posProps.showColumn(col);
+ }
+
+ public void showAllHiddenColumns()
+ {
+ posProps.showAllHiddenColumns();
+ }
+
public void hideSelectedColumns()
{
if (colSel.isEmpty())
isColSelChanged(true);
}
- public void hideColumns(int start, int end)
- {
- if (start == end)
- {
- colSel.hideColumns(start);
- }
- else
- {
- colSel.hideColumns(start, end);
- }
- isColSelChanged(true);
- }
-
- public void showColumn(int col)
- {
- colSel.revealHiddenColumns(col);
- isColSelChanged(true);
- }
- public void showAllHiddenColumns()
- {
- colSel.revealAllHiddenColumns();
- isColSelChanged(true);
- }
// common hide/show seq stuff
public void showAllHiddenSeqs()
{
- if (alignment.getHiddenSequences().getSize() > 0)
- {
- if (selectionGroup == null)
- {
- selectionGroup = new SequenceGroup();
- selectionGroup.setEndRes(alignment.getWidth() - 1);
- }
- List<SequenceI> tmp = alignment.getHiddenSequences().showAll(
- hiddenRepSequences);
- for (SequenceI seq : tmp)
- {
- selectionGroup.addSequence(seq, false);
- setSequenceAnnotationsVisible(seq, true);
- }
+ selectionGroup = posProps.showAllHiddenSeqs(selectionGroup);
- hiddenRepSequences = null;
+ /* if (alignment.getHiddenSequences().getSize() > 0)
+ {
+ if (selectionGroup == null)
+ {
+ selectionGroup = new SequenceGroup();
+ selectionGroup.setEndRes(alignment.getWidth() - 1);
+ }
+ List<SequenceI> tmp = alignment.getHiddenSequences().showAll(
+ hiddenRepSequences);
+ for (SequenceI seq : tmp)
+ {
+ selectionGroup.addSequence(seq, false);
+ setSequenceAnnotationsVisible(seq, true);
+ }
- firePropertyChange("alignment", null, alignment.getSequences());
- // used to set hasHiddenRows/hiddenRepSequences here, after the property
- // changed event
- sendSelection();
- }
+ hiddenRepSequences = null;
+
+ firePropertyChange("alignment", null, alignment.getSequences());
+ // used to set hasHiddenRows/hiddenRepSequences here, after the property
+ // changed event
+ sendSelection();
+ }*/
}
public void showSequence(int index)
{
- List<SequenceI> tmp = alignment.getHiddenSequences().showSequence(
+ posProps.showSequence(index, selectionGroup);
+ /*List<SequenceI> tmp = alignment.getHiddenSequences().showSequence(
index, hiddenRepSequences);
if (tmp.size() > 0)
{
}
firePropertyChange("alignment", null, alignment.getSequences());
sendSelection();
- }
+ }*/
}
public void hideAllSelectedSeqs()
{
- if (selectionGroup == null || selectionGroup.getSize() < 1)
+ posProps.hideAllSelectedSeqs(selectionGroup);
+ /*if (selectionGroup == null || selectionGroup.getSize() < 1)
{
return;
}
hideSequence(seqs);
- setSelectionGroup(null);
+ setSelectionGroup(null);*/
}
public void hideSequence(SequenceI[] seq)
{
- if (seq != null)
+ posProps.hideSequence(seq);
+ /*if (seq != null)
{
for (int i = 0; i < seq.length; i++)
{
setSequenceAnnotationsVisible(seq[i], false);
}
firePropertyChange("alignment", null, alignment.getSequences());
- }
+ }*/
}
/**
*/
public void hideSequences(SequenceI sequence, boolean representGroup)
{
- if (selectionGroup == null || selectionGroup.getSize() < 1)
+ posProps.hideSequences(sequence, representGroup, selectionGroup);
+ /*if (selectionGroup == null || selectionGroup.getSize() < 1)
{
hideSequence(new SequenceI[] { sequence });
return;
hideSequence(hseqs);
setSelectionGroup(null);
- sendSelection();
+ sendSelection();*/
}
- /**
- * Set visibility for any annotations for the given sequence.
- *
- * @param sequenceI
- */
- protected void setSequenceAnnotationsVisible(SequenceI sequenceI,
- boolean visible)
- {
- AlignmentAnnotation[] anns = alignment.getAlignmentAnnotation();
- if (anns != null)
- {
- for (AlignmentAnnotation ann : anns)
- {
- if (ann.sequenceRef == sequenceI)
- {
- ann.visible = visible;
- }
- }
- }
- }
public void hideRepSequences(SequenceI repSequence, SequenceGroup sg)
{
- int sSize = sg.getSize();
+ posProps.hideRepSequences(repSequence, sg);
+ /*int sSize = sg.getSize();
if (sSize < 2)
{
return;
}
sg.setSeqrep(repSequence); // note: not done in 2.7applet
sg.setHidereps(true); // note: not done in 2.7applet
- hideSequence(seqs);
+ hideSequence(seqs);*/
}
*/
public boolean isHiddenRepSequence(SequenceI seq)
{
- return (hiddenRepSequences != null && hiddenRepSequences
- .containsKey(seq));
+ return posProps.isHiddenRepSequence(seq);
+ // return (hiddenRepSequences != null && hiddenRepSequences
+ // .containsKey(seq));
}
/**
*/
public SequenceGroup getRepresentedSequences(SequenceI seq)
{
- return (SequenceGroup) (hiddenRepSequences == null ? null
- : hiddenRepSequences.get(seq));
+ return posProps.getRepresentedSequences(seq);
+ // return (SequenceGroup) (hiddenRepSequences == null ? null
+ // : hiddenRepSequences.get(seq));
}
@Override
public int adjustForHiddenSeqs(int alignmentIndex)
{
- return alignment.getHiddenSequences().adjustForHiddenSeqs(
- alignmentIndex);
+ return posProps.adjustForHiddenSeqs(alignmentIndex);
+ // return alignment.getHiddenSequences().adjustForHiddenSeqs(
+ // alignmentIndex);
}
@Override
public void invertColumnSelection()
{
- colSel.invertColumnSelection(0, alignment.getWidth());
+ posProps.invertColumnSelection();
+ // colSel.invertColumnSelection(0, alignment.getWidth());
}
@Override
@Override
public CigarArray getViewAsCigars(boolean selectedRegionOnly)
{
- return new CigarArray(alignment, colSel,
+ return new CigarArray(alignment, posProps.getColumnSelection(),
(selectedRegionOnly ? selectionGroup : null));
}
public jalview.datamodel.AlignmentView getAlignmentView(
boolean selectedOnly, boolean markGroups)
{
- return new AlignmentView(alignment, colSel, selectionGroup,
- colSel != null && colSel.hasHiddenColumns(), selectedOnly,
+ return new AlignmentView(alignment, posProps.getColumnSelection(),
+ selectionGroup, posProps.hasHiddenColumns(), selectedOnly,
markGroups);
}
}
selection = new String[iSize];
- if (colSel != null && colSel.hasHiddenColumns())
+ if (posProps.hasHiddenColumns())
{
- selection = colSel.getVisibleSequenceStrings(start, end, seqs);
+ selection = posProps.getVisibleSequenceStrings(start, end, seqs);
}
else
{
@Override
public List<int[]> getVisibleRegionBoundaries(int min, int max)
{
- ArrayList<int[]> regions = new ArrayList<int[]>();
- int start = min;
- int end = max;
+ return posProps.getVisibleRegionBoundaries(min, max);
+ /* ArrayList<int[]> regions = new ArrayList<int[]>();
+ int start = min;
+ int end = max;
- do
- {
- if (colSel != null && colSel.hasHiddenColumns())
- {
- if (start == 0)
+ do
{
- start = colSel.adjustForHiddenColumns(start);
- }
-
- end = colSel.getHiddenBoundaryRight(start);
- if (start == end)
- {
- end = max;
- }
- if (end > max)
- {
- end = max;
- }
- }
+ if (colSel != null && colSel.hasHiddenColumns())
+ {
+ if (start == 0)
+ {
+ start = colSel.adjustForHiddenColumns(start);
+ }
+
+ end = colSel.getHiddenBoundaryRight(start);
+ if (start == end)
+ {
+ end = max;
+ }
+ if (end > max)
+ {
+ end = max;
+ }
+ }
- regions.add(new int[] { start, end });
+ regions.add(new int[] { start, end });
- if (colSel != null && colSel.hasHiddenColumns())
- {
- start = colSel.adjustForHiddenColumns(end);
- start = colSel.getHiddenBoundaryLeft(start) + 1;
- }
- } while (end < max);
+ if (posProps.hasHiddenColumns())
+ {
+ start = colSel.adjustForHiddenColumns(end);
+ start = colSel.getHiddenBoundaryLeft(start) + 1;
+ }
+ } while (end < max);
- int[][] startEnd = new int[regions.size()][2];
+ int[][] startEnd = new int[regions.size()][2];
- return regions;
+ return regions;*/
}
@Override
public List<AlignmentAnnotation> getVisibleAlignmentAnnotation(
boolean selectedOnly)
{
- ArrayList<AlignmentAnnotation> ala = new ArrayList<AlignmentAnnotation>();
+ return posProps.getVisibleAlignmentAnnotation(selectedOnly,
+ selectionGroup);
+ /*ArrayList<AlignmentAnnotation> ala = new ArrayList<AlignmentAnnotation>();
AlignmentAnnotation[] aa;
if ((aa = alignment.getAlignmentAnnotation()) != null)
{
ala.add(clone);
}
}
- return ala;
+ return ala;*/
}
@Override
ResidueShaderI rs = residueShading;
if (rs != null)
{
- rs.alignmentChanged(alignment, hiddenRepSequences);
+ rs.alignmentChanged(alignment, posProps.getHiddenRepSequences());
rs.setConsensus(hconsensus);
if (rs.conservationApplied())
{
if (sg.cs != null)
{
- sg.cs.alignmentChanged(sg, hiddenRepSequences);
+ sg.cs.alignmentChanged(sg, posProps.getHiddenRepSequences());
}
sg.recalcConservation();
}
*/
public void expandColSelection(SequenceGroup sg, boolean wholewidth)
{
- int sgs, sge;
+ if (!this.hasSelectedColumns())
+ {
+ posProps.expandColSelection(sg, wholewidth);
+ }
+ /*int sgs, sge;
if (sg != null && (sgs = sg.getStartRes()) >= 0
&& sg.getStartRes() <= (sge = sg.getEndRes())
&& !this.hasSelectedColumns())
{
colSel.addElement(cspos);
}
- }
+ }*/
}
/**
package jalview.viewmodel;
import jalview.api.ViewStyleI;
+import jalview.datamodel.AlignmentAnnotation;
import jalview.datamodel.AlignmentI;
+import jalview.datamodel.ColumnSelection;
+import jalview.datamodel.SequenceCollectionI;
+import jalview.datamodel.SequenceGroup;
+import jalview.datamodel.SequenceI;
+
+import java.util.ArrayList;
+import java.util.Hashtable;
+import java.util.List;
+import java.util.Map;
/**
* Supplies and updates viewport properties relating to position such as: start
// viewstyle
private ViewStyleI viewstyle;
+ // hidden column data
+ protected ColumnSelection colSel = new ColumnSelection();
+
+ private long colselhash = -1;
+
+ // hidden sequence data
+ private Map<SequenceI, SequenceCollectionI> hiddenRepSequences;
+
/**
* Constructor
* @param alignment TODO
public int convertPixelsToResidues(int x)
{
return Math.round((float) x / viewstyle.getCharWidth());
- // return (int) ((float) x / viewstyle.getCharWidth());
}
/**
public int convertPixelsToSequences(int y)
{
return Math.round((float) y / viewstyle.getCharHeight());
- // return (int) ((float) y / viewstyle.getCharHeight());
}
/**
{
return (r * viewstyle.getCharWidth());
}
+
+ public void setHiddenColumns(ColumnSelection colsel)
+ {
+ this.colSel = colsel;
+ }
+
+ public ColumnSelection getColumnSelection()
+ {
+ return colSel;
+ }
+
+ public void setColumnSelection(ColumnSelection colSel)
+ {
+ this.colSel = colSel;
+ if (colSel != null)
+ {
+ // updateHiddenColumns(); - does nothing
+ }
+ isColSelChanged(true);
+ }
+
+ public boolean hasHiddenColumns()
+ {
+ return colSel != null && colSel.hasHiddenColumns();
+ }
+
+ /**
+ * checks current colsel against record of last hash value, and optionally
+ * updates record.
+ *
+ * @param b
+ * update the record of last hash value
+ * @return true if colsel changed since last call (when b is true)
+ */
+ public boolean isColSelChanged(boolean b)
+ {
+ int hc = (colSel == null || colSel.isEmpty()) ? -1 : colSel.hashCode();
+ if (hc != -1 && hc != colselhash)
+ {
+ if (b)
+ {
+ colselhash = hc;
+ }
+ return true;
+ }
+ return false;
+ }
+
+ public void hideColumns(int start, int end)
+ {
+ if (start == end)
+ {
+ colSel.hideColumns(start);
+ }
+ else
+ {
+ colSel.hideColumns(start, end);
+ }
+ isColSelChanged(true);
+ }
+
+ public void showColumn(int col)
+ {
+ colSel.revealHiddenColumns(col);
+ isColSelChanged(true);
+ }
+
+ public void showAllHiddenColumns()
+ {
+ colSel.revealAllHiddenColumns();
+ isColSelChanged(true);
+ }
+
+ public void invertColumnSelection()
+ {
+ colSel.invertColumnSelection(0, al.getWidth());
+ }
+
+ public List<int[]> getVisibleRegionBoundaries(int min, int max)
+ {
+ ArrayList<int[]> regions = new ArrayList<int[]>();
+ int start = min;
+ int end = max;
+
+ do
+ {
+ if (hasHiddenColumns())
+ {
+ if (start == 0)
+ {
+ start = colSel.adjustForHiddenColumns(start);
+ }
+
+ end = colSel.getHiddenBoundaryRight(start);
+ if (start == end)
+ {
+ end = max;
+ }
+ if (end > max)
+ {
+ end = max;
+ }
+ }
+
+ regions.add(new int[] { start, end });
+
+ if (hasHiddenColumns())
+ {
+ start = colSel.adjustForHiddenColumns(end);
+ start = colSel.getHiddenBoundaryLeft(start) + 1;
+ }
+ } while (end < max);
+
+ int[][] startEnd = new int[regions.size()][2];
+
+ return regions;
+ }
+
+ /**
+ * synthesize a column selection if none exists so it covers the given
+ * selection group. if wholewidth is false, no column selection is made if the
+ * selection group covers the whole alignment width.
+ *
+ * @param sg
+ * @param wholewidth
+ */
+ public void expandColSelection(SequenceGroup sg, boolean wholewidth)
+ {
+ int sgs, sge;
+ if (sg != null && (sgs = sg.getStartRes()) >= 0
+ && sg.getStartRes() <= (sge = sg.getEndRes()))
+ {
+ if (!wholewidth && al.getWidth() == (1 + sge - sgs))
+ {
+ // do nothing
+ return;
+ }
+ if (colSel == null)
+ {
+ colSel = new ColumnSelection();
+ }
+ for (int cspos = sg.getStartRes(); cspos <= sg.getEndRes(); cspos++)
+ {
+ colSel.addElement(cspos);
+ }
+ }
+ }
+
+ public List<AlignmentAnnotation> getVisibleAlignmentAnnotation(
+ boolean selectedOnly, SequenceGroup selectionGroup)
+ {
+ ArrayList<AlignmentAnnotation> ala = new ArrayList<AlignmentAnnotation>();
+ AlignmentAnnotation[] aa;
+ if ((aa = al.getAlignmentAnnotation()) != null)
+ {
+ for (AlignmentAnnotation annot : aa)
+ {
+ AlignmentAnnotation clone = new AlignmentAnnotation(annot);
+ if (selectedOnly && selectionGroup != null)
+ {
+ colSel.makeVisibleAnnotation(selectionGroup.getStartRes(),
+ selectionGroup.getEndRes(), clone);
+ }
+ else
+ {
+ colSel.makeVisibleAnnotation(clone);
+ }
+ ala.add(clone);
+ }
+ }
+ return ala;
+ }
+
+ public String[] getVisibleSequenceStrings(int start, int end,
+ SequenceI[] seqs)
+ {
+ return colSel.getVisibleSequenceStrings(start, end, seqs);
+ }
+
+ /**
+ * Set visibility for any annotations for the given sequence.
+ *
+ * @param sequenceI
+ */
+ protected void setSequenceAnnotationsVisible(SequenceI sequenceI,
+ boolean visible)
+ {
+ AlignmentAnnotation[] anns = al.getAlignmentAnnotation();
+ if (anns != null)
+ {
+ for (AlignmentAnnotation ann : anns)
+ {
+ if (ann.sequenceRef == sequenceI)
+ {
+ ann.visible = visible;
+ }
+ }
+ }
+ }
+
+ public void setHiddenRepSequences(
+ Map<SequenceI, SequenceCollectionI> hiddenRepSequences)
+ {
+ this.hiddenRepSequences = hiddenRepSequences;
+ }
+
+ public Map<SequenceI, SequenceCollectionI> getHiddenRepSequences()
+ {
+ return hiddenRepSequences;
+ }
+
+ // common hide/show seq stuff
+ public SequenceGroup showAllHiddenSeqs(SequenceGroup selectionGroup)
+ {
+ if (al.getHiddenSequences().getSize() > 0)
+ {
+ if (selectionGroup == null)
+ {
+ selectionGroup = new SequenceGroup();
+ selectionGroup.setEndRes(al.getWidth() - 1);
+ }
+ List<SequenceI> tmp = al.getHiddenSequences().showAll(
+ hiddenRepSequences);
+ for (SequenceI seq : tmp)
+ {
+ selectionGroup.addSequence(seq, false);
+ setSequenceAnnotationsVisible(seq, true);
+ }
+
+ hiddenRepSequences = null;
+
+ firePropertyChange("alignment", null, al.getSequences());
+ // used to set hasHiddenRows/hiddenRepSequences here, after the property
+ // changed event
+ sendSelection();
+ }
+ }
+
+ public void showSequence(int index, SequenceGroup selectionGroup)
+ {
+ List<SequenceI> tmp = al.getHiddenSequences().showSequence(index,
+ hiddenRepSequences);
+ if (tmp.size() > 0)
+ {
+ if (selectionGroup == null)
+ {
+ selectionGroup = new SequenceGroup();
+ selectionGroup.setEndRes(al.getWidth() - 1);
+ }
+
+ for (SequenceI seq : tmp)
+ {
+ selectionGroup.addSequence(seq, false);
+ setSequenceAnnotationsVisible(seq, true);
+ }
+ firePropertyChange("alignment", null, al.getSequences());
+ sendSelection();
+ }
+ }
+
+ public void hideAllSelectedSeqs(SequenceGroup selectionGroup)
+ {
+ if (selectionGroup == null || selectionGroup.getSize() < 1)
+ {
+ return;
+ }
+
+ SequenceI[] seqs = selectionGroup.getSequencesInOrder(al);
+
+ hideSequence(seqs);
+
+ setSelectionGroup(null);
+ }
+
+ public void hideSequence(SequenceI[] seq)
+ {
+ if (seq != null)
+ {
+ for (int i = 0; i < seq.length; i++)
+ {
+ al.getHiddenSequences().hideSequence(seq[i]);
+ setSequenceAnnotationsVisible(seq[i], false);
+ }
+ firePropertyChange("alignment", null, al.getSequences());
+ }
+ }
+
+ /**
+ * Hides the specified sequence, or the sequences it represents
+ *
+ * @param sequence
+ * the sequence to hide, or keep as representative
+ * @param representGroup
+ * if true, hide the current selection group except for the
+ * representative sequence
+ */
+ public void hideSequences(SequenceI sequence, boolean representGroup,
+ SequenceGroup selectionGroup)
+ {
+ if (selectionGroup == null || selectionGroup.getSize() < 1)
+ {
+ hideSequence(new SequenceI[] { sequence });
+ return;
+ }
+
+ if (representGroup)
+ {
+ hideRepSequences(sequence, selectionGroup);
+ setSelectionGroup(null);
+ return;
+ }
+
+ int gsize = selectionGroup.getSize();
+ SequenceI[] hseqs = selectionGroup.getSequences().toArray(
+ new SequenceI[gsize]);
+
+ hideSequence(hseqs);
+ setSelectionGroup(null);
+ sendSelection();
+ }
+
+ public void hideRepSequences(SequenceI repSequence, SequenceGroup sg)
+ {
+ int sSize = sg.getSize();
+ if (sSize < 2)
+ {
+ return;
+ }
+
+ if (hiddenRepSequences == null)
+ {
+ hiddenRepSequences = new Hashtable<SequenceI, SequenceCollectionI>();
+ }
+
+ hiddenRepSequences.put(repSequence, sg);
+
+ // Hide all sequences except the repSequence
+ SequenceI[] seqs = new SequenceI[sSize - 1];
+ int index = 0;
+ for (int i = 0; i < sSize; i++)
+ {
+ if (sg.getSequenceAt(i) != repSequence)
+ {
+ if (index == sSize - 1)
+ {
+ return;
+ }
+
+ seqs[index++] = sg.getSequenceAt(i);
+ }
+ }
+ sg.setSeqrep(repSequence); // note: not done in 2.7applet
+ sg.setHidereps(true); // note: not done in 2.7applet
+ hideSequence(seqs);
+
+ }
+
+ /**
+ *
+ * @param seq
+ * @return true if there are sequences represented by this sequence that are
+ * currently hidden
+ */
+ public boolean isHiddenRepSequence(SequenceI seq)
+ {
+ return (hiddenRepSequences != null && hiddenRepSequences
+ .containsKey(seq));
+ }
+
+ /**
+ *
+ * @param seq
+ * @return null or a sequence group containing the sequences that seq
+ * represents
+ */
+ public SequenceGroup getRepresentedSequences(SequenceI seq)
+ {
+ return (SequenceGroup) (hiddenRepSequences == null ? null
+ : hiddenRepSequences.get(seq));
+ }
+
+ public int adjustForHiddenSeqs(int alignmentIndex)
+ {
+ return al.getHiddenSequences().adjustForHiddenSeqs(alignmentIndex);
+ }
}
git://source.jalview.org / jalview.git / commitdiff