Last updated on 2025-02-01 12:48:41 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.9.1 | 29.17 | 219.56 | 248.73 | ERROR | |
| r-devel-linux-x86_64-debian-gcc | 0.9.1 | 18.36 | 150.36 | 168.72 | ERROR | |
| r-devel-linux-x86_64-fedora-clang | 0.9.1 | 410.15 | ERROR | |||
| r-devel-linux-x86_64-fedora-gcc | 0.9.1 | 405.39 | ERROR | |||
| r-devel-windows-x86_64 | 0.9.1 | 30.00 | 231.00 | 261.00 | NOTE | |
| r-patched-linux-x86_64 | 0.9.1 | 38.70 | 202.34 | 241.04 | ERROR | |
| r-release-linux-x86_64 | 0.9.1 | 23.95 | 199.30 | 223.25 | ERROR | |
| r-release-macos-arm64 | 0.9.1 | 81.00 | OK | |||
| r-release-macos-x86_64 | 0.9.1 | 160.00 | OK | |||
| r-release-windows-x86_64 | 0.9.1 | 28.00 | 212.00 | 240.00 | ERROR | |
| r-oldrel-macos-arm64 | 0.9.1 | 95.00 | OK | |||
| r-oldrel-macos-x86_64 | 0.9.1 | 154.00 | OK | |||
| r-oldrel-windows-x86_64 | 0.9.1 | 38.00 | 280.00 | 318.00 | ERROR |
Version: 0.9.1
Check: Rd cross-references
Result: NOTE
Found the following Rd file(s) with Rd \link{} targets missing package
anchors:
split_choices.Rd: choices_selected
template_coxreg_m.Rd: control_coxreg
template_coxreg_u.Rd: control_coxreg
tm_t_tte.Rd: data_extract_spec, coxph_pairwise, surv_timepoint,
surv_time
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: 0.9.1
Check: examples
Result: ERROR
Running examples in ‘teal.modules.clinical-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: tm_a_gee
> ### Title: teal Module: Generalized Estimating Equations (GEE) analysis
> ### Aliases: tm_a_gee
>
> ### ** Examples
>
> library(dplyr)
Attaching package: ‘dplyr’
The following objects are masked from ‘package:stats’:
filter, lag
The following objects are masked from ‘package:base’:
intersect, setdiff, setequal, union
> data <- teal_data()
> data <- within(data, {
+ ADSL <- tmc_ex_adsl
+ ADQS <- tmc_ex_adqs %>%
+ filter(ABLFL != "Y" & ABLFL2 != "Y") %>%
+ mutate(
+ AVISIT = as.factor(AVISIT),
+ AVISITN = rank(AVISITN) %>%
+ as.factor() %>%
+ as.numeric() %>%
+ as.factor(),
+ AVALBIN = AVAL < 50 # Just as an example to get a binary endpoint.
+ ) %>%
+ droplevels()
+ })
> datanames <- c("ADSL", "ADQS")
> datanames(data) <- datanames
Warning: `datanames<-()` was deprecated in teal.data 0.7.0.
ℹ invalid to use `datanames()<-` or `names()<-` on an object of class
`teal_data`. See ?names.teal_data
> join_keys(data) <- default_cdisc_join_keys[datanames]
>
> app <- init(
+ data = data,
+ modules = modules(
+ tm_a_gee(
+ label = "GEE",
+ dataname = "ADQS",
+ aval_var = choices_selected("AVALBIN", fixed = TRUE),
+ id_var = choices_selected(c("USUBJID", "SUBJID"), "USUBJID"),
+ arm_var = choices_selected(c("ARM", "ARMCD"), "ARM"),
+ visit_var = choices_selected(c("AVISIT", "AVISITN"), "AVISIT"),
+ paramcd = choices_selected(
+ choices = value_choices(data[["ADQS"]], "PARAMCD", "PARAM"),
+ selected = "FKSI-FWB"
+ ),
+ cov_var = choices_selected(c("BASE", "AGE", "SEX", "BASE:AVISIT"), NULL)
+ )
+ )
+ )
Initializing tm_a_gee (prototype)
Error in as.list(data@env) :
no slot of name "env" for this object of class "teal_data"
Calls: init -> create_app_id -> as.list
Execution halted
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64, r-release-linux-x86_64
Version: 0.9.1
Check: examples
Result: ERROR
Running examples in ‘teal.modules.clinical-Ex.R’ failed
The error most likely occurred in:
> ### Name: tm_a_gee
> ### Title: teal Module: Generalized Estimating Equations (GEE) analysis
> ### Aliases: tm_a_gee
>
> ### ** Examples
>
> library(dplyr)
Attaching package: ‘dplyr’
The following objects are masked from ‘package:stats’:
filter, lag
The following objects are masked from ‘package:base’:
intersect, setdiff, setequal, union
> data <- teal_data()
> data <- within(data, {
+ ADSL <- tmc_ex_adsl
+ ADQS <- tmc_ex_adqs %>%
+ filter(ABLFL != "Y" & ABLFL2 != "Y") %>%
+ mutate(
+ AVISIT = as.factor(AVISIT),
+ AVISITN = rank(AVISITN) %>%
+ as.factor() %>%
+ as.numeric() %>%
+ as.factor(),
+ AVALBIN = AVAL < 50 # Just as an example to get a binary endpoint.
+ ) %>%
+ droplevels()
+ })
> datanames <- c("ADSL", "ADQS")
> datanames(data) <- datanames
Warning: `datanames<-()` was deprecated in teal.data 0.7.0.
ℹ invalid to use `datanames()<-` or `names()<-` on an object of class
`teal_data`. See ?names.teal_data
> join_keys(data) <- default_cdisc_join_keys[datanames]
>
> app <- init(
+ data = data,
+ modules = modules(
+ tm_a_gee(
+ label = "GEE",
+ dataname = "ADQS",
+ aval_var = choices_selected("AVALBIN", fixed = TRUE),
+ id_var = choices_selected(c("USUBJID", "SUBJID"), "USUBJID"),
+ arm_var = choices_selected(c("ARM", "ARMCD"), "ARM"),
+ visit_var = choices_selected(c("AVISIT", "AVISITN"), "AVISIT"),
+ paramcd = choices_selected(
+ choices = value_choices(data[["ADQS"]], "PARAMCD", "PARAM"),
+ selected = "FKSI-FWB"
+ ),
+ cov_var = choices_selected(c("BASE", "AGE", "SEX", "BASE:AVISIT"), NULL)
+ )
+ )
+ )
Initializing tm_a_gee (prototype)
Error in as.list(data@env) :
no slot of name "env" for this object of class "teal_data"
Calls: init -> create_app_id -> as.list
Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-release-windows-x86_64, r-oldrel-windows-x86_64