Last updated on 2025-12-21 11:50:26 CET.
| Package | ERROR | NOTE | OK |
|---|---|---|---|
| BuyseTest | 4 | 2 | 7 |
| lavaSearch2 | 13 | ||
| LMMstar | 3 | 10 |
Current CRAN status: ERROR: 4, NOTE: 2, OK: 7
Version: 3.3.4
Check: tests
Result: ERROR
Running ‘testthat.R’ [108s/79s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> ## * load packages
> library(testthat)
> library(BuyseTest)
Loading required package: Rcpp
BuyseTest version 3.3.4
>
> library(lava)
Attaching package: 'lava'
The following object is masked from 'package:testthat':
compare
> library(data.table)
Attaching package: 'data.table'
The following object is masked from 'package:base':
%notin%
> library(survival)
Attaching package: 'survival'
The following object is masked from 'package:BuyseTest':
brier
> xx <- capture.output(print(veteran))
> library(riskRegression)
riskRegression version 2025.09.17
> library(prodlim)
> library(mvtnorm)
>
> ## * run tests
> ## setwd("~/Documents/GitHub/BuyseTest/tests/")
> ## source("~/Documents/GitHub/BuyseTest/tests/testthat/test-BuyseTest-engine.R")
> test_check("BuyseTest")
Saving _problems/test-BuysePower-92.R
Saving _problems/test-BuysePower-132.R
Saving _problems/test-BuysePower-174.R
Saving _problems/test-BuyseTTEM-34.R
Saving _problems/test-BuyseTest-standardization-184.R
Saving _problems/test-BuyseTest-standardization-212.R
[ FAIL 6 | WARN 0 | SKIP 2 | PASS 1157 ]
══ Skipped tests (2) ═══════════════════════════════════════════════════════════
• empty test (2): 'test-BuyseTest-previousBug.R:554:1',
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-BuysePower.R:92:9'): 1 tte endpoint - Gehan ────────────────────
Error in ``[.data.table`(d, , `:=`(id, 1:.N), by = "treatment")`: attempt access index 5/5 in VECTOR_ELT
Backtrace:
▆
1. ├─d[, `:=`(id, 1:.N), by = "treatment"] at test-BuysePower.R:92:9
2. └─data.table:::`[.data.table`(d, , `:=`(id, 1:.N), by = "treatment") at test-BuysePower.R:92:9
── Error ('test-BuysePower.R:132:9'): 1 tte endpoint - Peron ───────────────────
Error in ``[.data.table`(d, , `:=`(id, 1:.N), by = "treatment")`: attempt access index 5/5 in VECTOR_ELT
Backtrace:
▆
1. ├─d[, `:=`(id, 1:.N), by = "treatment"] at test-BuysePower.R:132:9
2. └─data.table:::`[.data.table`(d, , `:=`(id, 1:.N), by = "treatment") at test-BuysePower.R:132:9
── Error ('test-BuysePower.R:174:9'): Multiple endpoints ───────────────────────
Error in ``[.data.table`(d, , `:=`(id, 1:.N), by = "treatment")`: attempt access index 5/5 in VECTOR_ELT
Backtrace:
▆
1. ├─d[, `:=`(id, 1:.N), by = "treatment"] at test-BuysePower.R:174:9
2. └─data.table:::`[.data.table`(d, , `:=`(id, 1:.N), by = "treatment") at test-BuysePower.R:174:9
── Error ('test-BuyseTTEM.R:34:1'): (code run outside of `test_that()`) ────────
Error in ``[.data.table`(dt, , `:=`(last, eventtime == max(eventtime)), by = c("treatment", "toxicity"))`: attempt access index 6/6 in VECTOR_ELT
Backtrace:
▆
1. ├─...[] at test-BuyseTTEM.R:34:1
2. └─data.table:::`[.data.table`(...) at test-BuyseTTEM.R:34:1
── Error ('test-BuyseTest-standardization.R:184:5'): BuyseTest - standarization (second order, binary outcome, balanced) ──
Error in ``[.data.table`(mytable, , `:=`(m.X, length(unique(index.0))), by = "strata")`: attempt access index 9/9 in VECTOR_ELT
Backtrace:
▆
1. ├─mytable[, `:=`(m.X, length(unique(index.0))), by = "strata"] at test-BuyseTest-standardization.R:184:5
2. └─data.table:::`[.data.table`(...) at test-BuyseTest-standardization.R:184:5
── Error ('test-BuyseTest-standardization.R:212:5'): BuyseTest - standarization (second order, binary outcome, unbalanced) ──
Error in ``[.data.table`(mytableUB, , `:=`(m.X, length(unique(index.0))), by = "strata")`: attempt access index 9/9 in VECTOR_ELT
Backtrace:
▆
1. ├─mytableUB[, `:=`(m.X, length(unique(index.0))), by = "strata"] at test-BuyseTest-standardization.R:212:5
2. └─data.table:::`[.data.table`(...) at test-BuyseTest-standardization.R:212:5
[ FAIL 6 | WARN 0 | SKIP 2 | PASS 1157 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-debian-clang
Version: 3.3.4
Check: tests
Result: ERROR
Running ‘testthat.R’ [72s/73s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> ## * load packages
> library(testthat)
> library(BuyseTest)
Loading required package: Rcpp
BuyseTest version 3.3.4
>
> library(lava)
Attaching package: 'lava'
The following object is masked from 'package:testthat':
compare
> library(data.table)
Attaching package: 'data.table'
The following object is masked from 'package:base':
%notin%
> library(survival)
Attaching package: 'survival'
The following object is masked from 'package:BuyseTest':
brier
> xx <- capture.output(print(veteran))
> library(riskRegression)
riskRegression version 2025.09.17
> library(prodlim)
> library(mvtnorm)
>
> ## * run tests
> ## setwd("~/Documents/GitHub/BuyseTest/tests/")
> ## source("~/Documents/GitHub/BuyseTest/tests/testthat/test-BuyseTest-engine.R")
> test_check("BuyseTest")
Saving _problems/test-BuysePower-92.R
Saving _problems/test-BuysePower-132.R
Saving _problems/test-BuysePower-174.R
Saving _problems/test-BuyseTTEM-34.R
Saving _problems/test-BuyseTest-standardization-184.R
Saving _problems/test-BuyseTest-standardization-212.R
[ FAIL 6 | WARN 0 | SKIP 2 | PASS 1157 ]
══ Skipped tests (2) ═══════════════════════════════════════════════════════════
• empty test (2): 'test-BuyseTest-previousBug.R:554:1',
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-BuysePower.R:92:9'): 1 tte endpoint - Gehan ────────────────────
Error in ``[.data.table`(d, , `:=`(id, 1:.N), by = "treatment")`: attempt access index 5/5 in VECTOR_ELT
Backtrace:
▆
1. ├─d[, `:=`(id, 1:.N), by = "treatment"] at test-BuysePower.R:92:9
2. └─data.table:::`[.data.table`(d, , `:=`(id, 1:.N), by = "treatment") at test-BuysePower.R:92:9
── Error ('test-BuysePower.R:132:9'): 1 tte endpoint - Peron ───────────────────
Error in ``[.data.table`(d, , `:=`(id, 1:.N), by = "treatment")`: attempt access index 5/5 in VECTOR_ELT
Backtrace:
▆
1. ├─d[, `:=`(id, 1:.N), by = "treatment"] at test-BuysePower.R:132:9
2. └─data.table:::`[.data.table`(d, , `:=`(id, 1:.N), by = "treatment") at test-BuysePower.R:132:9
── Error ('test-BuysePower.R:174:9'): Multiple endpoints ───────────────────────
Error in ``[.data.table`(d, , `:=`(id, 1:.N), by = "treatment")`: attempt access index 5/5 in VECTOR_ELT
Backtrace:
▆
1. ├─d[, `:=`(id, 1:.N), by = "treatment"] at test-BuysePower.R:174:9
2. └─data.table:::`[.data.table`(d, , `:=`(id, 1:.N), by = "treatment") at test-BuysePower.R:174:9
── Error ('test-BuyseTTEM.R:34:1'): (code run outside of `test_that()`) ────────
Error in ``[.data.table`(dt, , `:=`(last, eventtime == max(eventtime)), by = c("treatment", "toxicity"))`: attempt access index 6/6 in VECTOR_ELT
Backtrace:
▆
1. ├─...[] at test-BuyseTTEM.R:34:1
2. └─data.table:::`[.data.table`(...) at test-BuyseTTEM.R:34:1
── Error ('test-BuyseTest-standardization.R:184:5'): BuyseTest - standarization (second order, binary outcome, balanced) ──
Error in ``[.data.table`(mytable, , `:=`(m.X, length(unique(index.0))), by = "strata")`: attempt access index 9/9 in VECTOR_ELT
Backtrace:
▆
1. ├─mytable[, `:=`(m.X, length(unique(index.0))), by = "strata"] at test-BuyseTest-standardization.R:184:5
2. └─data.table:::`[.data.table`(...) at test-BuyseTest-standardization.R:184:5
── Error ('test-BuyseTest-standardization.R:212:5'): BuyseTest - standarization (second order, binary outcome, unbalanced) ──
Error in ``[.data.table`(mytableUB, , `:=`(m.X, length(unique(index.0))), by = "strata")`: attempt access index 9/9 in VECTOR_ELT
Backtrace:
▆
1. ├─mytableUB[, `:=`(m.X, length(unique(index.0))), by = "strata"] at test-BuyseTest-standardization.R:212:5
2. └─data.table:::`[.data.table`(...) at test-BuyseTest-standardization.R:212:5
[ FAIL 6 | WARN 0 | SKIP 2 | PASS 1157 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 3.3.4
Check: tests
Result: ERROR
Running ‘testthat.R’ [136s/126s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> ## * load packages
> library(testthat)
> library(BuyseTest)
Loading required package: Rcpp
BuyseTest version 3.3.4
>
> library(lava)
Attaching package: 'lava'
The following object is masked from 'package:testthat':
compare
> library(data.table)
Attaching package: 'data.table'
The following object is masked from 'package:base':
%notin%
> library(survival)
Attaching package: 'survival'
The following object is masked from 'package:BuyseTest':
brier
> xx <- capture.output(print(veteran))
> library(riskRegression)
riskRegression version 2025.09.17
> library(prodlim)
> library(mvtnorm)
>
> ## * run tests
> ## setwd("~/Documents/GitHub/BuyseTest/tests/")
> ## source("~/Documents/GitHub/BuyseTest/tests/testthat/test-BuyseTest-engine.R")
> test_check("BuyseTest")
Saving _problems/test-BuysePower-92.R
Saving _problems/test-BuysePower-132.R
Saving _problems/test-BuysePower-174.R
Saving _problems/test-BuyseTTEM-34.R
Saving _problems/test-BuyseTest-standardization-184.R
Saving _problems/test-BuyseTest-standardization-212.R
[ FAIL 6 | WARN 0 | SKIP 2 | PASS 1157 ]
══ Skipped tests (2) ═══════════════════════════════════════════════════════════
• empty test (2): 'test-BuyseTest-previousBug.R:554:1',
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-BuysePower.R:92:9'): 1 tte endpoint - Gehan ────────────────────
Error in ``[.data.table`(d, , `:=`(id, 1:.N), by = "treatment")`: attempt access index 5/5 in VECTOR_ELT
Backtrace:
▆
1. ├─d[, `:=`(id, 1:.N), by = "treatment"] at test-BuysePower.R:92:9
2. └─data.table:::`[.data.table`(d, , `:=`(id, 1:.N), by = "treatment") at test-BuysePower.R:92:9
── Error ('test-BuysePower.R:132:9'): 1 tte endpoint - Peron ───────────────────
Error in ``[.data.table`(d, , `:=`(id, 1:.N), by = "treatment")`: attempt access index 5/5 in VECTOR_ELT
Backtrace:
▆
1. ├─d[, `:=`(id, 1:.N), by = "treatment"] at test-BuysePower.R:132:9
2. └─data.table:::`[.data.table`(d, , `:=`(id, 1:.N), by = "treatment") at test-BuysePower.R:132:9
── Error ('test-BuysePower.R:174:9'): Multiple endpoints ───────────────────────
Error in ``[.data.table`(d, , `:=`(id, 1:.N), by = "treatment")`: attempt access index 5/5 in VECTOR_ELT
Backtrace:
▆
1. ├─d[, `:=`(id, 1:.N), by = "treatment"] at test-BuysePower.R:174:9
2. └─data.table:::`[.data.table`(d, , `:=`(id, 1:.N), by = "treatment") at test-BuysePower.R:174:9
── Error ('test-BuyseTTEM.R:34:1'): (code run outside of `test_that()`) ────────
Error in ``[.data.table`(dt, , `:=`(last, eventtime == max(eventtime)), by = c("treatment", "toxicity"))`: attempt access index 6/6 in VECTOR_ELT
Backtrace:
▆
1. ├─...[] at test-BuyseTTEM.R:34:1
2. └─data.table:::`[.data.table`(...) at test-BuyseTTEM.R:34:1
── Error ('test-BuyseTest-standardization.R:184:5'): BuyseTest - standarization (second order, binary outcome, balanced) ──
Error in ``[.data.table`(mytable, , `:=`(m.X, length(unique(index.0))), by = "strata")`: attempt access index 9/9 in VECTOR_ELT
Backtrace:
▆
1. ├─mytable[, `:=`(m.X, length(unique(index.0))), by = "strata"] at test-BuyseTest-standardization.R:184:5
2. └─data.table:::`[.data.table`(...) at test-BuyseTest-standardization.R:184:5
── Error ('test-BuyseTest-standardization.R:212:5'): BuyseTest - standarization (second order, binary outcome, unbalanced) ──
Error in ``[.data.table`(mytableUB, , `:=`(m.X, length(unique(index.0))), by = "strata")`: attempt access index 9/9 in VECTOR_ELT
Backtrace:
▆
1. ├─mytableUB[, `:=`(m.X, length(unique(index.0))), by = "strata"] at test-BuyseTest-standardization.R:212:5
2. └─data.table:::`[.data.table`(...) at test-BuyseTest-standardization.R:212:5
[ FAIL 6 | WARN 0 | SKIP 2 | PASS 1157 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 3.3.4
Check: tests
Result: ERROR
Running ‘testthat.R’ [120s/142s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> ## * load packages
> library(testthat)
> library(BuyseTest)
Loading required package: Rcpp
BuyseTest version 3.3.4
>
> library(lava)
Attaching package: 'lava'
The following object is masked from 'package:testthat':
compare
> library(data.table)
Attaching package: 'data.table'
The following object is masked from 'package:base':
%notin%
> library(survival)
Attaching package: 'survival'
The following object is masked from 'package:BuyseTest':
brier
> xx <- capture.output(print(veteran))
> library(riskRegression)
riskRegression version 2025.09.17
> library(prodlim)
> library(mvtnorm)
>
> ## * run tests
> ## setwd("~/Documents/GitHub/BuyseTest/tests/")
> ## source("~/Documents/GitHub/BuyseTest/tests/testthat/test-BuyseTest-engine.R")
> test_check("BuyseTest")
Saving _problems/test-BuysePower-92.R
Saving _problems/test-BuysePower-132.R
Saving _problems/test-BuysePower-174.R
Saving _problems/test-BuyseTTEM-34.R
Saving _problems/test-BuyseTest-standardization-184.R
Saving _problems/test-BuyseTest-standardization-212.R
[ FAIL 6 | WARN 0 | SKIP 2 | PASS 1157 ]
══ Skipped tests (2) ═══════════════════════════════════════════════════════════
• empty test (2): 'test-BuyseTest-previousBug.R:554:1',
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-BuysePower.R:92:9'): 1 tte endpoint - Gehan ────────────────────
Error in ``[.data.table`(d, , `:=`(id, 1:.N), by = "treatment")`: attempt access index 5/5 in VECTOR_ELT
Backtrace:
▆
1. ├─d[, `:=`(id, 1:.N), by = "treatment"] at test-BuysePower.R:92:9
2. └─data.table:::`[.data.table`(d, , `:=`(id, 1:.N), by = "treatment") at test-BuysePower.R:92:9
── Error ('test-BuysePower.R:132:9'): 1 tte endpoint - Peron ───────────────────
Error in ``[.data.table`(d, , `:=`(id, 1:.N), by = "treatment")`: attempt access index 5/5 in VECTOR_ELT
Backtrace:
▆
1. ├─d[, `:=`(id, 1:.N), by = "treatment"] at test-BuysePower.R:132:9
2. └─data.table:::`[.data.table`(d, , `:=`(id, 1:.N), by = "treatment") at test-BuysePower.R:132:9
── Error ('test-BuysePower.R:174:9'): Multiple endpoints ───────────────────────
Error in ``[.data.table`(d, , `:=`(id, 1:.N), by = "treatment")`: attempt access index 5/5 in VECTOR_ELT
Backtrace:
▆
1. ├─d[, `:=`(id, 1:.N), by = "treatment"] at test-BuysePower.R:174:9
2. └─data.table:::`[.data.table`(d, , `:=`(id, 1:.N), by = "treatment") at test-BuysePower.R:174:9
── Error ('test-BuyseTTEM.R:34:1'): (code run outside of `test_that()`) ────────
Error in ``[.data.table`(dt, , `:=`(last, eventtime == max(eventtime)), by = c("treatment", "toxicity"))`: attempt access index 6/6 in VECTOR_ELT
Backtrace:
▆
1. ├─...[] at test-BuyseTTEM.R:34:1
2. └─data.table:::`[.data.table`(...) at test-BuyseTTEM.R:34:1
── Error ('test-BuyseTest-standardization.R:184:5'): BuyseTest - standarization (second order, binary outcome, balanced) ──
Error in ``[.data.table`(mytable, , `:=`(m.X, length(unique(index.0))), by = "strata")`: attempt access index 9/9 in VECTOR_ELT
Backtrace:
▆
1. ├─mytable[, `:=`(m.X, length(unique(index.0))), by = "strata"] at test-BuyseTest-standardization.R:184:5
2. └─data.table:::`[.data.table`(...) at test-BuyseTest-standardization.R:184:5
── Error ('test-BuyseTest-standardization.R:212:5'): BuyseTest - standarization (second order, binary outcome, unbalanced) ──
Error in ``[.data.table`(mytableUB, , `:=`(m.X, length(unique(index.0))), by = "strata")`: attempt access index 9/9 in VECTOR_ELT
Backtrace:
▆
1. ├─mytableUB[, `:=`(m.X, length(unique(index.0))), by = "strata"] at test-BuyseTest-standardization.R:212:5
2. └─data.table:::`[.data.table`(...) at test-BuyseTest-standardization.R:212:5
[ FAIL 6 | WARN 0 | SKIP 2 | PASS 1157 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-fedora-gcc
Version: 3.3.4
Check: installed package size
Result: NOTE
installed size is 10.3Mb
sub-directories of 1Mb or more:
libs 7.2Mb
Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64
Current CRAN status: OK: 13
Current CRAN status: NOTE: 3, OK: 10
Version: 1.1.0
Check: installed package size
Result: NOTE
installed size is 7.0Mb
sub-directories of 1Mb or more:
R 2.1Mb
doc-overview 2.2Mb
Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64