Last updated on 2024-10-19 07:51:45 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 2023.01.17 | 13.17 | 123.44 | 136.61 | NOTE | |
| r-devel-linux-x86_64-debian-gcc | 2023.01.17 | 8.42 | 84.22 | 92.64 | NOTE | |
| r-devel-linux-x86_64-fedora-clang | 2023.01.17 | 222.70 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 2023.01.17 | 189.59 | ERROR | |||
| r-devel-windows-x86_64 | 2023.01.17 | 15.00 | 153.00 | 168.00 | NOTE | |
| r-patched-linux-x86_64 | 2023.01.17 | 16.77 | 113.17 | 129.94 | OK | |
| r-release-linux-x86_64 | 2023.01.17 | 10.67 | 114.42 | 125.09 | OK | |
| r-release-macos-arm64 | 2023.01.17 | 54.00 | OK | |||
| r-release-macos-x86_64 | 2023.01.17 | 93.00 | OK | |||
| r-release-windows-x86_64 | 2023.01.17 | 15.00 | 144.00 | 159.00 | OK | |
| r-oldrel-macos-arm64 | 2023.01.17 | 59.00 | OK | |||
| r-oldrel-macos-x86_64 | 2023.01.17 | 108.00 | OK | |||
| r-oldrel-windows-x86_64 | 2023.01.17 | 17.00 | 174.00 | 191.00 | OK |
Version: 2023.01.17
Check: Rd cross-references
Result: NOTE
Found the following Rd file(s) with Rd \link{} targets missing package
anchors:
followupTable.Rd: anova.coxph
specialFrame.Rd: model.design, strata, strip.terms
stripes.Rd: plot.prodlim
Please provide package anchors for all Rd \link{} targets not in the
package itself and the base packages.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-windows-x86_64
Version: 2023.01.17
Check: examples
Result: ERROR
Running examples in ‘Publish-Ex.R’ failed
The error most likely occurred in:
> ### Name: publish.Score
> ### Title: Publish predictive accuracy results
> ### Aliases: publish.Score
>
> ### ** Examples
>
> if (requireNamespace("riskRegression",quietly=TRUE)){
+ library(riskRegression)
+ library(survival)
+ learn = sampleData(100)
+ val= sampleData(100)
+ f1=CSC(Hist(time,event)~X1+X8,data=learn)
+ f2=CSC(Hist(time,event)~X1+X5+X6+X8,learn)
+ xs=Score(list(f1,f2),data=val,formula=Hist(time,event)~1)
+ publish(xs)
+ }
riskRegression version 2023.12.21
Error in cbind(idxM, pidxM) : cannot get data pointer of 'NULL' objects
Calls: sampleData ... exogenous<- -> exogenous<-.lvm -> reindex -> mat.lvm -> cbind
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 2023.01.17
Check: tests
Result: ERROR
Running ‘test-glmSeries.R’
Running ‘test-publish-gls.R’
Running ‘test-publish-mi.R’ [8s/11s]
Running ‘test-publish.R’
Running ‘test-regressionTable.R’
Running ‘test-univariateTable.R’
Running the tests in ‘tests/test-publish-mi.R’ failed.
Complete output:
> library(testthat)
> library(Publish)
Loading required package: prodlim
> library(mitools)
> library(smcfcs)
> library(riskRegression)
riskRegression version 2023.12.21
>
> test_that("multiple imputation",{
+ set.seed(71)
+ d=sampleData(100)
+ ## generate missing values
+ d[X1==1,X6:=NA]
+ d[X2==1,X3:=NA]
+ d=d[,.(X8,X4,X3,X6,X7)]
+ sapply(d,function(x)sum(is.na(x)))
+ d[,X4:=factor(X4,levels=c("0","1"),labels=c("0","1"))]
+ set.seed(17)
+ f= smcfcs(d,smtype="lm",smformula=X8~X4*X3+X6+X7,method=c("","","logreg","norm",""),m=3)
+ ccfit=lm(X8~X4*X3+X6+X7,data=d)
+ impobj <- imputationList(f$impDatasets)
+ models <- with(impobj,lm(X8~X4*X3+X6+X7))
+ mifit <- MIcombine(models)
+ a <- publish(mifit,fit=ccfit,data=d)
+ })
── Error: multiple imputation ──────────────────────────────────────────────────
Error in `cbind(idxM, pidxM)`: cannot get data pointer of 'NULL' objects
Backtrace:
▆
1. └─riskRegression::sampleData(100)
2. ├─lava::`distribution<-`(...)
3. └─lava:::`distribution<-.lvm`(...)
4. ├─lava::`addvar<-`(`*tmp*`, value = as.formula(paste("~", variable)))
5. └─lava:::`addvar<-.lvm`(...)
6. ├─lava::`regression<-`(`*tmp*`, ..., value = value)
7. └─lava:::`regression<-.lvm`(`*tmp*`, ..., value = value)
8. └─lava::procformula(object, value, ...)
9. ├─lava::`exogenous<-`(...)
10. └─lava:::`exogenous<-.lvm`(...)
11. └─lava::reindex(x)
12. └─lava:::mat.lvm(x, res)
13. └─base::cbind(idxM, pidxM)
Error:
! Test failed
Backtrace:
▆
1. ├─testthat::test_that(...)
2. │ └─withr (local) `<fn>`()
3. └─reporter$stop_if_needed()
4. └─rlang::abort("Test failed", call = NULL)
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc