Last updated on 2026-10-24 12:51:52 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.0.10 | 8.72 | 95.52 | 104.24 | NOTE | |
| r-devel-linux-x86_64-debian-gcc | 1.0.10 | 5.96 | 62.28 | 68.24 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 1.0.10 | 92.90 | OK | |||
| r-devel-linux-x86_64-fedora-gcc | 1.0.10 | 67.55 | OK | |||
| r-devel-windows-x86_64 | 1.0.10 | 12.00 | 105.00 | 117.00 | OK | |
| r-patched-linux-x86_64 | 1.0.10 | 6.98 | 89.34 | 96.32 | OK | |
| r-release-linux-x86_64 | 1.0.10 | 7.45 | 89.54 | 96.99 | OK | |
| r-release-macos-arm64 | 1.0.10 | 2.00 | 26.00 | 28.00 | OK | |
| r-release-macos-x86_64 | 1.0.10 | 6.00 | 93.00 | 99.00 | OK | |
| r-release-windows-x86_64 | 1.0.10 | 10.00 | 98.00 | 108.00 | OK | |
| r-oldrel-macos-arm64 | 1.0.10 | OK | ||||
| r-oldrel-macos-x86_64 | 1.0.10 | 5.00 | 76.00 | 81.00 | OK | |
| r-oldrel-windows-x86_64 | 1.0.10 | 13.00 | 122.00 | 135.00 | OK |
Version: 1.0.10
Check: CRAN incoming feasibility
Result: NOTE
Maintainer: ‘Paul F. Blanche <paulfblanche@gmail.com>’
No Authors@R field in DESCRIPTION.
Please add one, modifying
Authors@R: c(person(given = c("Paul", "F"),
family = "Blanche",
role = "aut",
email = "paulfblanche@gmail.com"),
person(given = c("Thomas", "A."),
family = "Gerds",
role = "aut",
email = "tag@biostat.ku.dk"),
person(given = c("Paul", "F."),
family = "Blanche",
role = "cre",
email = "paulfblanche@gmail.com"))
as necessary.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc
Version: 1.0.10
Check: tests
Result: ERROR
Running ‘Reproduce-Fig-paper.R’ [3s/5s]
Running ‘test-wally-function.R’ [4s/6s]
Running the tests in ‘tests/Reproduce-Fig-paper.R’ failed.
Complete output:
>
> # {{{ load packages
> library(survival)
> library(data.table)
Attaching package: 'data.table'
The following object is masked from 'package:base':
%notin%
> library(prodlim)
> library(riskRegression)
riskRegression version 2026.03.11
> library(wally)
> # }}}
>
> # {{{ To save the plots
> ## savePlot <- FALSE
> ## whereToSave <- "~/research/wallyplot-calibration/"
> ## if(savePlot){
> ## setwd(whereToSave)
> ## }
> # }}}
>
> # {{{ load data
> data(threecity)
> head(threecity)
time status pi
1 5.100006 0 0.18365422
2 2.631080 0 0.05914116
3 5.099998 0 0.02726414
4 4.777546 2 0.10505747
5 5.099997 0 0.01770303
6 5.099994 0 0.09268762
> ## ?threecity
>
> data(divat)
> head(divat)
time status pi
1 6.1083123 0 0.05203018
2 0.9391085 0 0.41687232
3 2.8748220 0 0.09814880
4 1.2649217 1 0.99219744
5 4.0083233 0 0.08902425
6 1.1909977 0 0.35071812
> ## ?divat
> # }}}
>
>
> # {{{ Fig 1 of the paper : Calibration plos for the divat data
> # Fig 1.a.
> CalibFig1a <- wallyPlot(divat$pi,
+ time=5,
+ hanging=FALSE,
+ superuser.hide=FALSE,
+ superuser.choice=1,
+ superuser.zoom=TRUE,
+ formula=Hist(time,status)~1,
+ data=divat,
+ ylim=c(-.1,.60),
+ seed= 123459,
+ hline.lwd=3,
+ mar=c(1.01, 4.1, 1.15, 2))
Error in a$specials[[i]] : subscript out of bounds
Calls: wallyPlot ... EventHistory.frame -> model.design -> delete.response -> off
Execution halted
Running the tests in ‘tests/test-wally-function.R’ failed.
Complete output:
>
> # {{{ load packages
> library(survival)
> library(data.table)
Attaching package: 'data.table'
The following object is masked from 'package:base':
%notin%
> library(testthat)
> library(prodlim)
> library(riskRegression)
riskRegression version 2026.03.11
> library(wally)
> # }}}
>
>
> # {{{ "Wally for survival weird formula and hanging"
> test_that("Wally for survival weird formula and hanging",{
+ set.seed(10)
+ d <- sampleData(138,outcome="survival")
+ setnames(d,c("time","event"),c("truc","toto"))
+ f <- coxph(Surv(truc,toto)~X6+X7,data=d,x=TRUE)
+ d$pi <- predictRisk(f,times=2,newdata=d)
+ pred <- as.matrix(d$pi,ncol=1)
+ ## matrix input
+ u <- wallyPlot(pred,
+ time=2,
+ formula=as.formula(paste("Hist(","truc",",","toto",")~1")),
+ data=d,
+ hanging=TRUE,
+ seed=5987,
+ colbox="red",
+ superuser.hide=FALSE,
+ superuser.choice=NULL,
+ q=13)
+ ## model input
+ v <- wallyPlot(f,
+ time=2,
+ formula=as.formula(paste("Hist(","truc",",","toto",")~1")),
+ data=d,
+ hanging=TRUE,
+ seed=5987,
+ colbox="red",
+ superuser.hide=FALSE,
+ superuser.choice=NULL,
+ q=13)
+ expect_equal(u,v)
+ })
── Error: Wally for survival weird formula and hanging ─────────────────────────
<subscriptOutOfBoundsError/error/condition>
Error in `a$specials[[i]]`: subscript out of bounds
Backtrace:
▆
1. ├─riskRegression::predictRisk(f, times = 2, newdata = d)
2. └─riskRegression:::predictRisk.coxph(f, times = 2, newdata = d)
3. └─riskRegression::predictCox(...)
4. └─riskRegression::coxVariableName(object, model.frame = object.modelFrame)
5. └─stats::delete.response(...)
6. └─stats (local) off(a$specials[[i]])
Error:
! Test failed with 1 failure and 0 successes.
Backtrace:
▆
1. └─testthat::test_that(...)
2. └─testthat:::test_code(code, parent.frame())
3. ├─withr (local) `<fn>`()
4. └─reporter$end_test(context = reporter$.context, test = test)
5. └─cli::cli_abort(...)
6. └─rlang::abort(...)
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc