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Along with my half-written commit message from earlier, I also forgot to commit the integration test updates. This is what happens when you try to do things 30 seconds before you leave for the day. To finish up from before: complex events weren't being padded with the reference base as per the VCF spec. They are now.

This commit is contained in:
Eric Banks 2011-07-27 22:51:21 -04:00
parent 64aad67b5f
commit 6230315ff2
1 changed files with 8 additions and 8 deletions
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16
public/java/test/org/broadinstitute/sting/utils/variantcontext/VariantContextIntegrationTest.java
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@ -19,14 +19,14 @@ public class VariantContextIntegrationTest extends WalkerTest {
static HashMap<String, String> expectations = new HashMap<String, String>();
static {
expectations.put("-L 1:1-10000 --printPerLocus", "e4ee2eaa3114888e918a1c82df7a027a");
expectations.put("-L 1:1-10000 --printPerLocus --takeFirstOnly", "5b5635e4877d82e8a27d70dac24bda2f");
expectations.put("-L 1:1-10000 --printPerLocus --onlyContextsStartinAtCurrentPosition", "ceced3f270b4fe407ee83bc9028becde");
expectations.put("-L 1:1-10000 --printPerLocus --takeFirstOnly --onlyContextsStartinAtCurrentPosition", "9a9b9e283553c28bf58de1cafa38fe92");
expectations.put("-L 1:1-10000 --printPerLocus", "e9d96677a57bc3a10fb6d9ba942c19f0");
expectations.put("-L 1:1-10000 --printPerLocus --takeFirstOnly", "8a1174d2b18b98e624abbe93e6af8fdd");
expectations.put("-L 1:1-10000 --printPerLocus --onlyContextsStartinAtCurrentPosition", "3933f1fae5453c54c3f791a23de07599");
expectations.put("-L 1:1-10000 --printPerLocus --takeFirstOnly --onlyContextsStartinAtCurrentPosition", "c9cf2f01bf045a58dcc7649fd6ea2396");
expectations.put("-L 1:1-10000 --printPerLocus --onlyContextsOfType SNP", "2097e32988d603d3b353b50218c86d3b");
expectations.put("-L 1:1-10000 --printPerLocus --onlyContextsOfType INDEL", "033bd952fca048fe1a4f6422b57ab2ed");
expectations.put("-L 1:1-10000 --printPerLocus --onlyContextsOfType INDEL --onlyContextsStartinAtCurrentPosition", "5e40980c02797f90821317874426a87a");
expectations.put("-L 1:1-10000 --printPerLocus --onlyContextsOfType MIXED", "e5a00766f8c1ff9cf92310bafdec3126");
expectations.put("-L 1:1-10000 --printPerLocus --onlyContextsOfType INDEL", "a103d856e8bc558c949c6e3f184e8913");
expectations.put("-L 1:1-10000 --printPerLocus --onlyContextsOfType INDEL --onlyContextsStartinAtCurrentPosition", "5f2265ac6c6d80d64dc6e69a05c1250b");
expectations.put("-L 1:1-10000 --printPerLocus --onlyContextsOfType MIXED", "06a3ae4c0afa23b429a9491ab7707f3c");
expectations.put("-L 1:1-10000 --printPerLocus --onlyContextsOfType NO_VARIATION", "39335acdb34c8a2af433dc50d619bcbc");
}
@ -58,7 +58,7 @@ public class VariantContextIntegrationTest extends WalkerTest {
// this really just tests that we are seeing the same number of objects over all of chr1
WalkerTestSpec spec = new WalkerTestSpec( root + " -L 1" + " -o %s",
1, // just one output file
Arrays.asList("529f936aa6c303658b23caf4e527782f"));
Arrays.asList("2532234d2c934a5e14849655dd7b5f4f"));
executeTest("testLargeScaleConversion", spec);
}
}