Package org.snpsift.testCases
Class TestCasesZzz
- java.lang.Object
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- org.snpsift.testCases.TestCasesZzz
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public class TestCasesZzz extends java.lang.Object
Try test cases in this class before adding them to long test cases- Author:
- pcingola
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Field Summary
Fields Modifier and Type Field Description static boolean
debug
protected java.lang.String[]
defaultExtraArgs
protected boolean
deleteIndexFile
static boolean
verbose
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Constructor Summary
Constructors Constructor Description TestCasesZzz()
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Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description java.util.List<org.snpeff.vcf.VcfEntry>
annotate(java.lang.String dbFileName, java.lang.String fileName, java.lang.String[] extraArgs)
Annotatejava.lang.String
annotateOut(java.lang.String dbFileName, java.lang.String fileName, java.lang.String[] extraArgs)
Annotate and return STDOUT as a stringvoid
annotateTest(java.lang.String dbFileName, java.lang.String fileName)
void
annotateTest(java.lang.String dbFileName, java.lang.String fileName, java.lang.String[] extraArgs)
Annotate a file and check that the new annotation matches the expected oneprotected java.lang.String[]
argsList(java.lang.String dbFileName, java.lang.String fileName, java.lang.String[] extraArgs)
void
test_45()
Annotate GnomAd with multiple entries
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Method Detail
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annotate
public java.util.List<org.snpeff.vcf.VcfEntry> annotate(java.lang.String dbFileName, java.lang.String fileName, java.lang.String[] extraArgs)
Annotate
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annotateOut
public java.lang.String annotateOut(java.lang.String dbFileName, java.lang.String fileName, java.lang.String[] extraArgs)
Annotate and return STDOUT as a string
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annotateTest
public void annotateTest(java.lang.String dbFileName, java.lang.String fileName)
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annotateTest
public void annotateTest(java.lang.String dbFileName, java.lang.String fileName, java.lang.String[] extraArgs)
Annotate a file and check that the new annotation matches the expected one
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argsList
protected java.lang.String[] argsList(java.lang.String dbFileName, java.lang.String fileName, java.lang.String[] extraArgs)
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test_45
public void test_45()
Annotate GnomAd with multiple entries
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