Bob,
Progress
that fixed my build
here is what I get using
__________________
Long startTime = System.currentTimeMillis();
StringBuilder pdbDataBuilder = new StringBuilder();
icnt = tmpData.size();
for (i=0;i<icnt;i++)
{
pdbDataBuilder.append(tmpData.get(i) + '\n');
}
tmpData.clear();
String result = viewer.loadInline(pdbDataBuilder.toString());
Long finishTime = System.currentTimeMillis();
System.out.println("Load time = " + Long.toString(finishTime - startTime));
FileManager.getAtomSetCollectionFromString()
The Resolver thinks Pdb
ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false
20 models in this collection. Use getProperty "modelInfo" or
getProperty "auxiliaryInfo" to inspect them.
ModelSet: not autobonding; use forceAutobond=true to force automatic bond
creation
Load time = 4802
____________________
When I use the new function I deplete the heap space
Here is the call and the result
_____________________
Long startTime = System.currentTimeMillis();
Vector<String> data = new Vector<String>(tmpData);
String result = viewer.loadInline(data,false);
Long finishTime = System.currentTimeMillis();
System.out.println("Load time = " + Long.toString(finishTime - startTime));
java.lang.OutOfMemoryError: Java heap space
at java.io.BufferedReader.<init>(BufferedReader.java:80)
at java.io.BufferedReader.<init>(BufferedReader.java:91)
at org.jmol.viewer.DataReader.<init>(DataReader.java:17)
at org.jmol.viewer.StringDataReader.<init>(StringDataReader.java:8)
at
org.jmol.viewer.FileManager.createAtomSeCollectionFromArrayData(FileManager.java:310)
at org.jmol.viewer.Viewer.loadInline(Viewer.java:1877)
at
org.seirad.gentellectV3.singlequery.jStructureViewer.loadStructure(jStructureViewer.java:192)
I am surprised the vector approach requires more memory. There may be a way
to cast List to Vector rather than creating a new Vector.
Joe
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