Uses of Class
org.snpeff.snpEffect.ErrorWarningType
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Packages that use ErrorWarningType Package Description org.snpeff.interval org.snpeff.snpEffect org.snpeff.snpEffect.testCases.integration org.snpeff.util -
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Uses of ErrorWarningType in org.snpeff.interval
Methods in org.snpeff.interval that return ErrorWarningType Modifier and Type Method Description ErrorWarningType
Exon. sanityCheck(Variant variant)
Check that the base in the exon corresponds with the one in the SNPErrorWarningType
Transcript. sanityCheck(Variant variant)
Perfom some baseic chekcs, return error type, if any -
Uses of ErrorWarningType in org.snpeff.snpEffect
Methods in org.snpeff.snpEffect that return ErrorWarningType Modifier and Type Method Description static ErrorWarningType
ErrorWarningType. valueOf(java.lang.String name)
Returns the enum constant of this type with the specified name.static ErrorWarningType[]
ErrorWarningType. values()
Returns an array containing the constants of this enum type, in the order they are declared.Methods in org.snpeff.snpEffect with parameters of type ErrorWarningType Modifier and Type Method Description void
VariantEffect. addErrorMessage(ErrorWarningType errmsg)
void
VariantEffects. addErrorWarning(Variant variant, ErrorWarningType errwarn)
void
VariantEffect. addErrorWarningInfo(ErrorWarningType errwarn)
Add an error or warningvoid
VariantEffect. addInfoMessage(ErrorWarningType infomsg)
void
VariantEffect. addWarningMessge(ErrorWarningType warnmsg)
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Uses of ErrorWarningType in org.snpeff.snpEffect.testCases.integration
Methods in org.snpeff.snpEffect.testCases.integration with parameters of type ErrorWarningType Modifier and Type Method Description void
TestCasesIntegrationBase. checkTranscriptError(java.lang.String[] args, ErrorWarningType warningType)
Run a predictor and check if the expected warnings appear -
Uses of ErrorWarningType in org.snpeff.util
Fields in org.snpeff.util with type parameters of type ErrorWarningType Modifier and Type Field Description protected static java.util.Map<ErrorWarningType,java.lang.Integer>
Log. warnCount
Methods in org.snpeff.util that return types with arguments of type ErrorWarningType Modifier and Type Method Description static java.util.Map<ErrorWarningType,java.lang.Integer>
Log. getWarnCount()
Methods in org.snpeff.util with parameters of type ErrorWarningType Modifier and Type Method Description static void
Log. silenceWarning(ErrorWarningType warningType)
static void
Log. warning(ErrorWarningType warnType, java.lang.String msg)
Show a warning message (up to MAX_ERRORS times)
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