Last updated on 2026-06-08 13:50:42 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.9.1 | 12.53 | 119.66 | 132.19 | OK | |
| r-devel-linux-x86_64-debian-gcc | 0.9.1 | 9.58 | 44.88 | 54.46 | FAIL | |
| r-devel-linux-x86_64-fedora-clang | 0.9.1 | 23.00 | 162.39 | 185.39 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 0.9.1 | 22.00 | 172.06 | 194.06 | OK | |
| r-devel-windows-x86_64 | 0.9.1 | 16.00 | 121.00 | 137.00 | OK | |
| r-patched-linux-x86_64 | 0.9.1 | 10.28 | 113.34 | 123.62 | OK | |
| r-release-linux-x86_64 | 0.9.1 | 7.87 | 110.61 | 118.48 | OK | |
| r-release-macos-arm64 | 0.9.1 | 3.00 | 32.00 | 35.00 | OK | |
| r-release-macos-x86_64 | 0.9.1 | 11.00 | 165.00 | 176.00 | OK | |
| r-release-windows-x86_64 | 0.9.1 | 15.00 | 117.00 | 132.00 | OK | |
| r-oldrel-macos-arm64 | 0.9.1 | OK | ||||
| r-oldrel-macos-x86_64 | 0.9.1 | 10.00 | 113.00 | 123.00 | OK | |
| r-oldrel-windows-x86_64 | 0.9.1 | 22.00 | 140.00 | 162.00 | OK |
Version: 0.9.1
Check: whether the namespace can be unloaded cleanly
Result: WARN
Fatal error: cannot create 'R_TempDir'
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.9.1
Check: examples
Result: ERROR
Running examples in ‘msSPChelpR-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: calc_futime
> ### Title: Calculate follow-up time per case until end of follow-up
> ### depending on pat_status - tidyverse version
> ### Aliases: calc_futime
>
> ### ** Examples
>
> #load sample data
> data("us_second_cancer")
>
> #prep step - make wide data as this is the required format
> usdata_wide <- us_second_cancer %>%
+ msSPChelpR::reshape_wide_tidyr(case_id_var = "fake_id",
+ time_id_var = "SEQ_NUM", timevar_max = 10)
>
> #prep step - calculate p_spc variable
> usdata_wide <- usdata_wide %>%
+ dplyr::mutate(p_spc = dplyr::case_when(is.na(t_site_icd.2) ~ "No SPC",
+ !is.na(t_site_icd.2) ~ "SPC developed",
+ TRUE ~ NA_character_)) %>%
+ dplyr::mutate(count_spc = dplyr::case_when(is.na(t_site_icd.2) ~ 1,
+ TRUE ~ 0))
>
> #prep step - create patient status variable
> usdata_wide <- usdata_wide %>%
+ msSPChelpR::pat_status(., fu_end = "2017-12-31", dattype = "seer",
+ status_var = "p_status", life_var = "p_alive.1",
+ birthdat_var = "datebirth.1", lifedat_var = "datedeath.1")
Error in set_labels_helper(x = x[[vars[i]]], labels = labels[[i]], force.labels = force.labels, :
Package 'haven' required for this function. Please install it.
Calls: %>% ... <Anonymous> -> %>% -> <Anonymous> -> set_labels_helper
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.9.1
Check: tests
Result: ERROR
Running ‘testthat.R’ [4s/4s]
Running the tests in ‘tests/testthat.R’ failed.
Complete output:
> library(testthat)
> library(msSPChelpR)
>
> test_check("msSPChelpR")
Saving _problems/test-pat_status-23.R
Long dataset had too many cases per patient. Wide dataset is limited to 2 cases per id as defined in timevar_max option.
[ FAIL 1 | WARN 0 | SKIP 0 | PASS 4 ]
══ Failed tests ════════════════════════════════════════════════════════════════
── Error ('test-pat_status.R:5:3'): custom variable name for status_var works ──
Error in `set_labels_helper(x = x[[vars[i]]], labels = labels[[i]], force.labels = force.labels, force.values = force.values, drop.na = drop.na, var.name = vars[i])`: Package 'haven' required for this function. Please install it.
Backtrace:
▆
1. ├─... %>% ... at test-pat_status.R:5:3
2. ├─msSPChelpR::pat_status(...)
3. │ └─... %>% ...
4. └─sjlabelled::val_labels(...)
5. └─sjlabelled:::set_labels_helper(...)
[ FAIL 1 | WARN 0 | SKIP 0 | PASS 4 ]
Error:
! Test failures.
Execution halted
Flavor: r-devel-linux-x86_64-debian-gcc
Version: 0.9.1
Check: re-building of vignette outputs
Result: FAIL
Flavor: r-devel-linux-x86_64-debian-gcc