Last updated on 2018-07-17 01:47:01 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 2.2.8 | 16.71 | 69.87 | 86.58 | ERROR | |
| r-devel-linux-x86_64-debian-gcc | 2.2.8 | 15.19 | 75.12 | 90.31 | WARN | |
| r-devel-linux-x86_64-fedora-clang | 2.2.8 | 147.48 | WARN | |||
| r-devel-linux-x86_64-fedora-gcc | 2.2.8 | 141.41 | WARN | |||
| r-devel-windows-ix86+x86_64 | 2.2.8 | 54.00 | 223.00 | 277.00 | WARN | |
| r-patched-linux-x86_64 | 2.2.8 | 17.77 | 90.38 | 108.15 | WARN | |
| r-patched-solaris-x86 | 2.2.8 | 175.20 | WARN | |||
| r-release-linux-x86_64 | 2.2.8 | 15.95 | 89.63 | 105.58 | WARN | |
| r-release-windows-ix86+x86_64 | 2.2.8 | 53.00 | 166.00 | 219.00 | OK | |
| r-release-osx-x86_64 | 2.2.8 | NOTE | ||||
| r-oldrel-windows-ix86+x86_64 | 2.2.8 | 31.00 | 167.00 | 198.00 | OK | |
| r-oldrel-osx-x86_64 | 2.2.8 | WARN |
Version: 2.2.8
Check: use of S3 registration
Result: WARN
Registered S3 method from a standard package overwritten by 'emil':
method from
plot.Surv survival
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-ix86+x86_64, r-devel-windows-ix86+x86_64, r-patched-linux-x86_64, r-patched-solaris-x86, r-release-linux-x86_64
Version: 2.2.8
Check: examples
Result: ERROR
Running examples in ‘emil-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: evaluate
> ### Title: Evaluate a modeling procedure
> ### Aliases: evaluate
>
> ### ** Examples
>
> x <- iris[-5]
> y <- iris$Species
> cv <- resample("crossvalidation", y, nfold = 4, nrepeat = 4)
> result <- evaluate("lda", x, y, resample=cv)
15 Jul 20:28 Evaluating modeling performance...
15 Jul 20:28 Repeat 1, fold 1
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting lda
Loading required namespace: MASS
Result size is 81.07 KiB.
Estimated completion time is 20:28.
15 Jul 20:28 Repeat 1, fold 2
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting lda
15 Jul 20:28 Repeat 1, fold 3
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting lda
15 Jul 20:28 Repeat 1, fold 4
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting lda
15 Jul 20:28 Repeat 2, fold 1
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting lda
15 Jul 20:28 Repeat 2, fold 2
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting lda
15 Jul 20:28 Repeat 2, fold 3
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting lda
15 Jul 20:28 Repeat 2, fold 4
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting lda
15 Jul 20:28 Repeat 3, fold 1
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting lda
15 Jul 20:28 Repeat 3, fold 2
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting lda
15 Jul 20:28 Repeat 3, fold 3
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting lda
15 Jul 20:28 Repeat 3, fold 4
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting lda
15 Jul 20:28 Repeat 4, fold 1
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting lda
15 Jul 20:28 Repeat 4, fold 2
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting lda
15 Jul 20:28 Repeat 4, fold 3
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting lda
15 Jul 20:28 Repeat 4, fold 4
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting lda
>
> # Multiple procedures fitted and tested simultaneously.
> # This is useful when the dataset is large and the splitting takes a long time.
> # If you name the elements of the list emil will also name the elements of the
> # results object in the same way.
> result <- evaluate(c(Linear = "lda", Quadratic = "qda"), x, y, resample=cv)
15 Jul 20:28 Evaluating modeling performance...
15 Jul 20:28 Repeat 1, fold 1
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting Linear
15 Jul 20:28 Fitting Quadratic
Result size is 162.68 KiB.
Estimated completion time is 20:28.
15 Jul 20:28 Repeat 1, fold 2
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting Linear
15 Jul 20:28 Fitting Quadratic
15 Jul 20:28 Repeat 1, fold 3
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting Linear
15 Jul 20:28 Fitting Quadratic
15 Jul 20:28 Repeat 1, fold 4
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting Linear
15 Jul 20:28 Fitting Quadratic
15 Jul 20:28 Repeat 2, fold 1
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting Linear
15 Jul 20:28 Fitting Quadratic
15 Jul 20:28 Repeat 2, fold 2
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting Linear
15 Jul 20:28 Fitting Quadratic
15 Jul 20:28 Repeat 2, fold 3
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting Linear
15 Jul 20:28 Fitting Quadratic
15 Jul 20:28 Repeat 2, fold 4
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting Linear
15 Jul 20:28 Fitting Quadratic
15 Jul 20:28 Repeat 3, fold 1
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting Linear
15 Jul 20:28 Fitting Quadratic
15 Jul 20:28 Repeat 3, fold 2
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting Linear
15 Jul 20:28 Fitting Quadratic
15 Jul 20:28 Repeat 3, fold 3
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting Linear
15 Jul 20:28 Fitting Quadratic
15 Jul 20:28 Repeat 3, fold 4
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting Linear
15 Jul 20:28 Fitting Quadratic
15 Jul 20:28 Repeat 4, fold 1
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting Linear
15 Jul 20:28 Fitting Quadratic
15 Jul 20:28 Repeat 4, fold 2
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting Linear
15 Jul 20:28 Fitting Quadratic
15 Jul 20:28 Repeat 4, fold 3
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting Linear
15 Jul 20:28 Fitting Quadratic
15 Jul 20:28 Repeat 4, fold 4
15 Jul 20:28 Extracting fitting and testing datasets.
15 Jul 20:28 Fitting Linear
15 Jul 20:28 Fitting Quadratic
>
> # Multicore parallelization (on a single computer)
> result <- evaluate("lda", x, y, resample=cv, .cores=2)
15 Jul 20:28 Evaluating modeling performance...
Loading required namespace: parallel
15 Jul 20:28 Repeat 1, fold 1
15 Jul 20:28 Repeat 1, fold 2
15 Jul 20:28 Repeat 1, fold 3
15 Jul 20:28 Repeat 2, fold 1
15 Jul 20:28 Repeat 1, fold 4
15 Jul 20:28 Repeat 2, fold 3
15 Jul 20:28 Repeat 2, fold 2
15 Jul 20:28 Repeat 3, fold 1
15 Jul 20:28 Repeat 2, fold 4
15 Jul 20:28 Repeat 3, fold 3
15 Jul 20:28 Repeat 3, fold 2
15 Jul 20:28 Repeat 4, fold 1
15 Jul 20:28 Repeat 3, fold 4
15 Jul 20:28 Repeat 4, fold 3
15 Jul 20:28 Repeat 4, fold 2
15 Jul 20:28 Repeat 4, fold 4
>
> # Parallelization using a cluster (not limited to a single computer)
> # PSOCK is supported on windows too!
> require(parallel)
Loading required package: parallel
> cl <- makePSOCKcluster(2)
> clusterEvalQ(cl, library(emil))
[[1]]
[1] "emil" "stats" "graphics" "grDevices" "utils" "datasets"
[7] "methods" "base"
[[2]]
[1] "emil" "stats" "graphics" "grDevices" "utils" "datasets"
[7] "methods" "base"
> clusterExport(cl, c("x", "y"))
> result <- parLapply(cl, cv, function(fold)
+ evaluate("lda", x, y, resample=fold))
>
>
>
>
> base::assign(".dptime", (proc.time() - get(".ptime", pos = "CheckExEnv")), pos = "CheckExEnv")
> base::cat("evaluate", base::get(".format_ptime", pos = 'CheckExEnv')(get(".dptime", pos = "CheckExEnv")), "\n", file=base::get(".ExTimings", pos = 'CheckExEnv'), append=TRUE, sep="\t")
> cleanEx()
detaching ‘package:parallel’
Error: connections left open:
<-localhost:11352 (sockconn)
<-localhost:11352 (sockconn)
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 2.2.8
Check: dependencies in R code
Result: NOTE
Namespace in Imports field not imported from: ‘Rcpp’
All declared Imports should be used.
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-patched-solaris-x86, r-release-osx-x86_64, r-oldrel-osx-x86_64
Version: 2.2.8
Check: whether package can be installed
Result: WARN
Found the following significant warnings:
Warning: Installed Rcpp (0.12.12) different from Rcpp used to build dplyr (0.12.11).
Flavor: r-oldrel-osx-x86_64