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Proper memory metrics in the file. Please use -et if at all possible 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4175 348d0f76-0448-11de-a6fe-93d51630548a
This commit is contained in:
depristo 2010-08-31 20:30:09 +00:00
parent 63c7cbd89b
commit 32c6b48106
1 changed files with 11 additions and 4 deletions
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15
java/src/org/broadinstitute/sting/gatk/phonehome/GATKRunReport.java
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@ -117,8 +117,11 @@ public class GATKRunReport {
@Element(required = true, name = "svn_version") @Element(required = true, name = "svn_version")
private String svnVersion; private String svnVersion;
@Element(required = true, name = "memory") @Element(required = true, name = "total_memory")
private long memory; private long totalMemory;
@Element(required = true, name = "max_memory")
private long maxMemory;
@Element(required = true, name = "java_tmp_directory") @Element(required = true, name = "java_tmp_directory")
private String tmpDir; private String tmpDir;
@ -181,10 +184,14 @@ public class GATKRunReport {
runTime = (end.getTime() - engine.getStartTime().getTime()) / 1000L; // difference in seconds runTime = (end.getTime() - engine.getStartTime().getTime()) / 1000L; // difference in seconds
nIterations = engine.getCumulativeMetrics().getNumIterations(); nIterations = engine.getCumulativeMetrics().getNumIterations();
nReads = engine.getCumulativeMetrics().getNumReadsSeen(); nReads = engine.getCumulativeMetrics().getNumReadsSeen();
//readMetrics = engine.getCumulativeMetrics().toString();
memory = Runtime.getRuntime().totalMemory(); // todo -- expand
tmpDir = System.getProperty("java.io.tmpdir"); tmpDir = System.getProperty("java.io.tmpdir");
// deal with memory usage
Runtime.getRuntime().gc(); // call GC so totalMemory is ~ used memory
maxMemory = Runtime.getRuntime().maxMemory();
totalMemory = Runtime.getRuntime().totalMemory();
// user and hostname -- information about the runner of the GATK // user and hostname -- information about the runner of the GATK
userName = System.getProperty("user.name"); userName = System.getProperty("user.name");
hostName = resolveHostname(); hostName = resolveHostname();