zzh
/
gatk-3.8
1
0
Fork 0
Code Issues Pull Requests Packages Projects Releases Wiki Activity

static thread cache reset in UnitTest 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@4870 348d0f76-0448-11de-a6fe-93d51630548a
This commit is contained in:
depristo 2010-12-17 21:53:10 +00:00
parent 3bbc6a0540
commit b7e4a015c0
2 changed files with 19 additions and 4 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

10
java/src/org/broadinstitute/sting/utils/fasta/CachingIndexedFastaSequenceFile.java
View File

@ -67,11 +67,19 @@ public class CachingIndexedFastaSequenceFile extends IndexedFastaSequenceFile {
ReferenceSequence seq = null; ReferenceSequence seq = null;
} }
private static ThreadLocal<Cache> cache = new ThreadLocal<Cache> () { private static ThreadLocal<Cache> cache;
static {
resetThreadLocalCache();
};
protected static void resetThreadLocalCache() {
cache = new ThreadLocal<Cache> () {
@Override protected Cache initialValue() { @Override protected Cache initialValue() {
return new Cache(); return new Cache();
} }
}; };
}
/** /**
* Same as general constructor but allows one to override the default cacheSize * Same as general constructor but allows one to override the default cacheSize

7
java/test/org/broadinstitute/sting/utils/fasta/CachingIndexedFastaSequenceFileUnitTest.java
View File

@ -8,6 +8,8 @@ package org.broadinstitute.sting.utils.fasta;
import org.testng.Assert; import org.testng.Assert;
import org.testng.annotations.Test; import org.testng.annotations.Test;
import org.testng.annotations.DataProvider; import org.testng.annotations.DataProvider;
import org.testng.annotations.BeforeTest;
import org.testng.annotations.BeforeMethod;
import org.broadinstitute.sting.BaseTest; import org.broadinstitute.sting.BaseTest;
import java.io.File; import java.io.File;
@ -30,6 +32,11 @@ public class CachingIndexedFastaSequenceFileUnitTest extends BaseTest {
private static final List<Integer> QUERY_SIZES = Arrays.asList(1, 10, 100, 1000); private static final List<Integer> QUERY_SIZES = Arrays.asList(1, 10, 100, 1000);
private static final List<Integer> CACHE_SIZES = Arrays.asList(-1, 10, 1000); private static final List<Integer> CACHE_SIZES = Arrays.asList(-1, 10, 1000);
@BeforeTest
public void clearCache() {
CachingIndexedFastaSequenceFile.resetThreadLocalCache();
}
@DataProvider(name = "fastas") @DataProvider(name = "fastas")
public Object[][] createData1() { public Object[][] createData1() {
List<Object[]> params = new ArrayList<Object[]>(); List<Object[]> params = new ArrayList<Object[]>();