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summerfair.log
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summerfair.log
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-------*summerfair*-----------
Start log at: 2022-11-15 17:03:27
Used rule: sincefirst
Analysing transmission using mll at di nov 15 17:03:28 2022
For group level summarizing in arranging the data for a glm, the minimum of the group is used.Adding missing grouping variables: `round`, `level1`
Joining, by = c("round", "level1")
[1] "Control group: control not present"
Called from: eval(expr, p)
Warning messages:
1: In readLines(file) :
incomplete final line found on 'src/R/summerfair_config.yaml'
2: In file.remove(log.file) :
cannot remove file 'summerfair.log', reason 'No such file or directory'
3: Problem while computing `sample_measure = replace(sample_measure, is.na(as.numeric(sample_measure)), NA)`.
i NAs introduced by coercion
debug at C:/Surfdrive/Projecten/SUMMERFAIR/ProjectShareSUMMERFAIR/Syntax/summer-fair/src/R/LocalAlgorithm.R#526: fit <- mle2(minuslogl = logl)
[1] 8.463548
[1] 8.463548
Warning messages:
1: In read.dcf(file.path(p, "DESCRIPTION"), c("Package", "Version")) :
cannot open compressed file 'C:/R360/RfW/library/config/DESCRIPTION', probable reason 'No such file or directory'
2: In find.package(if (is.null(package)) loadedNamespaces() else package, :
there is no package called ‘config’
debug at C:/Surfdrive/Projecten/SUMMERFAIR/ProjectShareSUMMERFAIR/Syntax/summer-fair/src/R/LocalAlgorithm.R#527: return(fit)
[1] 8.463548
No documentation for ‘logl’ in specified packages and libraries:
you could try ‘??logl’
Warning messages:
1: In read.dcf(file.path(p, "DESCRIPTION"), c("Package", "Version")) :
cannot open compressed file 'C:/R360/RfW/library/config/DESCRIPTION', probable reason 'No such file or directory'
2: In find.package(if (is.null(package)) loadedNamespaces() else package, :
there is no package called ‘config’
-------*summerfair*-----------
Start log at: 2022-11-15 17:04:28
Used rule: sincefirst
Analysing transmission using mll at di nov 15 17:04:28 2022
For group level summarizing in arranging the data for a glm, the minimum of the group is used.Adding missing grouping variables: `round`, `level1`
Joining, by = c("round", "level1")
[1] "Control group: control not present"
Called from: eval(expr, p)
Warning messages:
1: In readLines(file) :
incomplete final line found on 'src/R/summerfair_config.yaml'
2: In file.remove(log.file) :
cannot remove file 'summerfair.log', reason 'Permission denied'
3: Problem while computing `sample_measure = replace(sample_measure, is.na(as.numeric(sample_measure)), NA)`.
i NAs introduced by coercion
debug at C:/Surfdrive/Projecten/SUMMERFAIR/ProjectShareSUMMERFAIR/Syntax/summer-fair/src/R/LocalAlgorithm.R#526: fit <- mle2(minuslogl = logl)
[1] 2
Used rule: sincefirst
Analysing transmission using mll at di nov 15 17:05:14 2022
For group level summarizing in arranging the data for a glm, the minimum of the group is used.Adding missing grouping variables: `round`, `level1`
Joining, by = c("round", "level1")
[1] "Control group: control not present"
Called from: eval(expr, p)
Warning messages:
1: In readLines(file) :
incomplete final line found on 'src/R/summerfair_config.yaml'
2: Problem while computing `sample_measure = replace(sample_measure, is.na(as.numeric(sample_measure)), NA)`.
i NAs introduced by coercion
debug at C:/Surfdrive/Projecten/SUMMERFAIR/ProjectShareSUMMERFAIR/Syntax/summer-fair/src/R/LocalAlgorithm.R#526: fit <- mle2(minuslogl = logl)
[1] 8.463548
function(beta1 = 1.){
-sum((data$cases*log(1-exp(-(beta1*data$i1/data$n1)*data$dt))-
(data$s-data$cases)*(beta1*data$i1/data$n1)*data$dt))}
<environment: 0x000002217e854630>