/usr/include/libphylo/seqContainerTreeMap.h is in rate4site 3.0.0-2.
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1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 | // $Id: seqContainerTreeMap.h 8985 2010-11-16 19:56:20Z cohenofi $
#ifndef ___SEQUENCE_CONTAINER_TREE_MAP
#define ___SEQUENCE_CONTAINER_TREE_MAP
#include "definitions.h"
#include "tree.h"
#include "treeIt.h"
#include "sequenceContainer.h"
void checkThatNamesInTreeAreSameAsNamesInSequenceContainer(const tree& et,const sequenceContainer & sc, bool bLeavesOnly = true);
void intersectNamesInTreeAndSequenceContainer(tree& et,sequenceContainer & sc, bool bLeavesOnly= true);
void getLeavesSequences(const sequenceContainer& sc, const tree& tr, sequenceContainer& sc_leaves);
class seqContainerTreeMap {
public:
explicit seqContainerTreeMap(const sequenceContainer& sc,
const tree& et) {
checkThatNamesInTreeAreSameAsNamesInSequenceContainer(et,sc);
_V.resize(et.getNodesNum());
treeIterTopDownConst tit(et);
for (tree::nodeP myN = tit.first();myN!=tit.end(); myN = tit.next()) {
if (myN->isInternal()) {
_V[myN->id()] = -1;
} else {
_V[myN->id()] = sc.getId(myN->name(),false);
}
}
}
int seqIdOfNodeI(const int nodeID) {
return _V[nodeID];
}
private:
vector<int> _V;// _V[i] is the sequenceId of node I.
};
#endif
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