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java.lang.Objectsir.estimate.DataFileSpec
Used to have plenty of classes here, but for now DataileSpec is all we need It is a JavaCC encoding of the grammar specifying recovery and infection times for each individual individual with such recordings. This is a new format compared to earlier, because we now give event times belonging to each individual instead of just event times. Furthermore, both inf, rec and diag events are specified.
Field Summary | |
Token |
jj_nt
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Token |
token
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DataFileSpecTokenManager |
token_source
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Fields inherited from interface sir.estimate.DataFileSpecConstants |
CENSORED, CONSTANT, DEFAULT, DIGIT, EOF, EOL, FLOAT, INTEGER, NA, SIGNEDFLOAT, SINGLE_LINE_COMMENT, tokenImage |
Constructor Summary | |
DataFileSpec(DataFileSpecTokenManager tm)
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DataFileSpec(java.io.InputStream stream)
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DataFileSpec(java.io.Reader stream)
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Method Summary | |
void |
Beta()
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void |
BetaN()
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void |
CeaseTime()
In case there is any information about it being a transmission experiment |
void |
DataFile()
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void |
Diag()
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void |
DiagEventTime()
Diagnosed events can be censored |
void |
disable_tracing()
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void |
enable_tracing()
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void |
EventTime()
Event time - either a double or NA with start value We throw on stack in top: startValue, top-1: t |
ParseException |
generateParseException()
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Data |
getData()
Deliver Data object with data read from file |
Token |
getNextToken()
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Token |
getToken(int index)
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void |
Incu()
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void |
Inf()
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static void |
main(java.lang.String[] args)
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void |
ParamStartValue(int paramNo)
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void |
RecTimeList()
Each individual having events is listed, one per line with format posx posy eventTime eventTime |
void |
ReInit(DataFileSpecTokenManager tm)
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void |
ReInit(java.io.InputStream stream)
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void |
ReInit(java.io.Reader stream)
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void |
StartValue()
Start valu of a time |
void |
Unit()
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void |
UnitList()
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void |
Vaccinated()
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Methods inherited from class java.lang.Object |
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Field Detail |
public DataFileSpecTokenManager token_source
public Token token
public Token jj_nt
Constructor Detail |
public DataFileSpec(java.io.InputStream stream)
public DataFileSpec(java.io.Reader stream)
public DataFileSpec(DataFileSpecTokenManager tm)
Method Detail |
public static void main(java.lang.String[] args) throws ParseException
ParseException
public Data getData()
public final void DataFile() throws ParseException
ParseException
public final void ParamStartValue(int paramNo) throws ParseException
ParseException
public final void Beta() throws ParseException
ParseException
public final void BetaN() throws ParseException
ParseException
public final void Incu() throws ParseException
ParseException
public final void Inf() throws ParseException
ParseException
public final void Diag() throws ParseException
ParseException
public final void CeaseTime() throws ParseException
ParseException
public final void UnitList() throws ParseException
ParseException
public final void Vaccinated() throws ParseException
ParseException
public final void Unit() throws ParseException
ParseException
public final void StartValue() throws ParseException
ParseException
public final void EventTime() throws ParseException
ParseException
public final void DiagEventTime() throws ParseException
ParseException
public final void RecTimeList() throws ParseException
ParseException
public void ReInit(java.io.InputStream stream)
public void ReInit(java.io.Reader stream)
public void ReInit(DataFileSpecTokenManager tm)
public final Token getNextToken()
public final Token getToken(int index)
public final ParseException generateParseException()
public final void enable_tracing()
public final void disable_tracing()
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