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should never commit without running intergration tests. 

git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2838 348d0f76-0448-11de-a6fe-93d51630548a
This commit is contained in:
depristo 2010-02-12 23:42:37 +00:00
parent a1a3d5fcb0
commit 8072e9aed5
2 changed files with 10 additions and 11 deletions
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2
java/src/org/broadinstitute/sting/gatk/refdata/VariantContextAdaptors.java
View File

@ -271,4 +271,4 @@ public class VariantContextAdaptors {
keys.add(VCFGenotypeRecord.GENOTYPE_QUALITY_KEY);
return Utils.sorted(new ArrayList<String>(keys));
}
}
}

19
java/test/org/broadinstitute/sting/gatk/contexts/variantcontext/VariantContextIntegrationTest.java
View File

@ -19,20 +19,19 @@ public class VariantContextIntegrationTest extends WalkerTest {
static HashMap<String, String> expectations = new HashMap<String, String>();
static {
expectations.put("-L 1:1-10000 --printPerLocus", "eb5802e7e615fa79b788a9447b7e824c");
expectations.put("-L 1:1-10000 --printPerLocus --takeFirstOnly", "f4580866bcff10e0e742f422c45695d3");
expectations.put("-L 1:1-10000 --printPerLocus --onlyContextsStartinAtCurrentPosition", "85c949c985d8aa340030362ea1fc13d2");
expectations.put("-L 1:1-10000 --printPerLocus --takeFirstOnly --onlyContextsStartinAtCurrentPosition", "a45430cfed2f574fb69e79d74ed41017");
expectations.put("-L 1:1-10000 --printPerLocus --onlyContextsOfType SNP", "105547f432744e0776bd58e753cfa859");
expectations.put("-L 1:1-10000 --printPerLocus --onlyContextsOfType INDEL", "d758adbab9011e42c77d502fe4d62c27");
expectations.put("-L 1:1-10000 --printPerLocus --onlyContextsOfType INDEL --onlyContextsStartinAtCurrentPosition", "933ec8327192c5ed58a1952c73fb4f73");
expectations.put("-L 1:1-10000 --printPerLocus --onlyContextsOfType MIXED", "7d5d0283d92220ee78db7465d675b37f");
expectations.put("-L 1:1-10000 --printPerLocus", "63fd69e4ab430b79fb213dd27b58ae1c");
expectations.put("-L 1:1-10000 --printPerLocus --takeFirstOnly", "276ed96efaaffc2fc1c3b3deb4e04d1d");
expectations.put("-L 1:1-10000 --printPerLocus --onlyContextsStartinAtCurrentPosition", "a37f7bc34c1824688d3e475945c19d5a");
expectations.put("-L 1:1-10000 --printPerLocus --takeFirstOnly --onlyContextsStartinAtCurrentPosition", "1715a6e0daf873f2e2cd10cb56085174");
expectations.put("-L 1:1-10000 --printPerLocus --onlyContextsOfType SNP", "bf33ab1ed65da7f56c02ca7956d9c31e");
expectations.put("-L 1:1-10000 --printPerLocus --onlyContextsOfType INDEL", "629ffd6b3b9ea1bce29cb715576f5c8a");
expectations.put("-L 1:1-10000 --printPerLocus --onlyContextsOfType INDEL --onlyContextsStartinAtCurrentPosition", "d4b812b2fec231f8f5b61d6f26cf86a5");
expectations.put("-L 1:1-10000 --printPerLocus --onlyContextsOfType MIXED", "546e8e546f2cdfba31f91ed083137c42");
expectations.put("-L 1:1-10000 --printPerLocus --onlyContextsOfType NO_VARIATION", "39335acdb34c8a2af433dc50d619bcbc");
}
@Test
public void testConversionSelection() {
for ( Map.Entry<String, String> entry : expectations.entrySet() ) {
String extraArgs = entry.getKey();
String md5 = entry.getValue();
@ -62,4 +61,4 @@ public class VariantContextIntegrationTest extends WalkerTest {
Arrays.asList("3fcdd982df080e6abc0afaba6abdf386"));
executeTest("testLargeScaleConversion", spec);
}
}
}