Check results for 'waou'

using R Under development (unstable) (2026-09-21 r90579 ucrt)
using platform: x86_64-w64-mingw32
R was compiled by gcc.exe (GCC) 14.3.0 GNU Fortran (GCC) 14.3.0
running under: Windows Server 2022 x64 (build 20348)
using session charset: UTF-8 * current time: 2026-09-25 02:45:36 UTC
checking for file 'waou/DESCRIPTION' ... OK
this is package 'waou' version '0.1.0'
package encoding: UTF-8
checking package namespace information ... OK
checking package dependencies ... OK
checking if this is a source package ... OK
checking if there is a namespace ... OK
checking for hidden files and directories ... OK
checking for portable file names ... OK
checking whether package 'waou' can be installed ... OK See the install log for details.
checking installed package size ... OK
checking package directory ... OK
checking DESCRIPTION meta-information ... OK
checking top-level files ... OK
checking for left-over files ... OK
checking index information ... OK
checking package subdirectories ... OK
checking code files for non-ASCII characters ... OK
checking R files for syntax errors ... OK
checking whether the package can be loaded ... [5s] OK
checking whether the package can be loaded with stated dependencies ... [4s] OK
checking whether the package can be unloaded cleanly ... [4s] OK
checking whether the namespace can be loaded with stated dependencies ... [4s] OK
checking whether the namespace can be unloaded cleanly ... [4s] OK
checking loading without being on the library search path ... [5s] OK
checking use of S3 registration ... OK
checking dependencies in R code ... OK
checking S3 generic/method consistency ... OK
checking replacement functions ... OK
checking foreign function calls ... OK
checking R code for possible problems ... [11s] OK
checking Rd files ... [1s] OK
checking Rd metadata ... OK
checking Rd cross-references ... OK
checking for missing documentation entries ... OK
checking for code/documentation mismatches ... OK
checking Rd \usage sections ... OK
checking Rd contents ... OK
checking for unstated dependencies in examples ... OK
checking contents of 'data' directory ... OK
checking data for non-ASCII characters ... [1s] OK
checking LazyData ... OK
checking data for ASCII and uncompressed saves ... OK
checking examples ... [9s] ERROR Running examples in 'waou-Ex.R' failed The error most likely occurred in: > ### Name: calculate_weights > ### Title: Calculate Weights > ### Aliases: calculate_weights > > ### ** Examples > > # Prepare the NHIS data > calVars <- c( + "SEX_A_R", "AGEP_A_R", "HISPALLP_A_R", "ORIENT_A_R", "HICOV_A_R", "EDUCP_A_R", "REGION_R", + "EMPLASTWK_A_R", "HOUTENURE_A_R", "MARITAL_A_R" + ) > stuVars <- "DIBTYPE_A_R" > vars_dummies <- c("AGEP_A_R","HISPALLP_A_R","EDUCP_A_R","REGION_R") > nhis_keep_vars <- c("PPSU","PSTRAT","WTFA_A") > nhis_imputed <- impute_data(nhis_processed, c(calVars, stuVars), nhis_keep_vars) iter imp variable 1 1 SEX_A_R_I AGEP_A_R_I ORIENT_A_R_I HICOV_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 2 1 SEX_A_R_I AGEP_A_R_I ORIENT_A_R_I HICOV_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 3 1 SEX_A_R_I AGEP_A_R_I ORIENT_A_R_I HICOV_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 4 1 SEX_A_R_I AGEP_A_R_I ORIENT_A_R_I HICOV_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 5 1 SEX_A_R_I AGEP_A_R_I ORIENT_A_R_I HICOV_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 6 1 SEX_A_R_I AGEP_A_R_I ORIENT_A_R_I HICOV_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 7 1 SEX_A_R_I AGEP_A_R_I ORIENT_A_R_I HICOV_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 8 1 SEX_A_R_I AGEP_A_R_I ORIENT_A_R_I HICOV_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 9 1 SEX_A_R_I AGEP_A_R_I ORIENT_A_R_I HICOV_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 10 1 SEX_A_R_I AGEP_A_R_I ORIENT_A_R_I HICOV_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 11 1 SEX_A_R_I AGEP_A_R_I ORIENT_A_R_I HICOV_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 12 1 SEX_A_R_I AGEP_A_R_I ORIENT_A_R_I HICOV_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 13 1 SEX_A_R_I AGEP_A_R_I ORIENT_A_R_I HICOV_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 14 1 SEX_A_R_I AGEP_A_R_I ORIENT_A_R_I HICOV_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 15 1 SEX_A_R_I AGEP_A_R_I ORIENT_A_R_I HICOV_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 16 1 SEX_A_R_I AGEP_A_R_I ORIENT_A_R_I HICOV_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 17 1 SEX_A_R_I AGEP_A_R_I ORIENT_A_R_I HICOV_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 18 1 SEX_A_R_I AGEP_A_R_I ORIENT_A_R_I HICOV_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 19 1 SEX_A_R_I AGEP_A_R_I ORIENT_A_R_I HICOV_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 20 1 SEX_A_R_I AGEP_A_R_I ORIENT_A_R_I HICOV_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I > nhis_dummied <- dummies(nhis_imputed, vars=paste0(vars_dummies, '_I')) > factor_vars <- setdiff(names(nhis_dummied), nhis_keep_vars) > nhis_dummied[factor_vars] <- lapply(nhis_dummied[factor_vars], as.factor) > > # Prepare the synthetic All of Us data > aou_imputed <- impute_data(aou_synthetic, c(calVars, stuVars)) iter imp variable 1 1 AGEP_A_R_I ORIENT_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 2 1 AGEP_A_R_I ORIENT_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 3 1 AGEP_A_R_I ORIENT_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 4 1 AGEP_A_R_I ORIENT_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 5 1 AGEP_A_R_I ORIENT_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 6 1 AGEP_A_R_I ORIENT_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 7 1 AGEP_A_R_I ORIENT_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 8 1 AGEP_A_R_I ORIENT_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 9 1 AGEP_A_R_I ORIENT_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 10 1 AGEP_A_R_I ORIENT_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 11 1 AGEP_A_R_I ORIENT_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 12 1 AGEP_A_R_I ORIENT_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 13 1 AGEP_A_R_I ORIENT_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 14 1 AGEP_A_R_I ORIENT_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 15 1 AGEP_A_R_I ORIENT_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 16 1 AGEP_A_R_I ORIENT_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 17 1 AGEP_A_R_I ORIENT_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 18 1 AGEP_A_R_I ORIENT_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 19 1 AGEP_A_R_I ORIENT_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I 20 1 AGEP_A_R_I ORIENT_A_R_I EDUCP_A_R_I EMPLASTWK_A_R_I HOUTENURE_A_R_I MARITAL_A_R_I DIBTYPE_A_R_I > aou_dummied <- dummies(aou_imputed, vars=paste0(vars_dummies, '_I')) > aou_dummied[] <- lapply(aou_dummied, as.factor) > > # Calculate IPW weights using NHIS data and applied to All of Us > weights_df <- calculate_weights( + nhis_dummied, + aou_dummied, + 'ipw', + paste0(calVars, '_I'), + paste0(stuVars, '_I'), + weight='WTFA_A', + strata='PSTRAT', + psu='PPSU' + ) Error in nonprob(selection = reformulate(aux_variables), target = reformulate(study_variables[1]), : The outcome/target variable `DIBTYPE_A_R_I` is a factor; only numeric or logical outcomes are supported. Convert it before calling `nonprob()` (e.g. to 0/1 for `family_outcome = "binomial"`). Calls: calculate_weights -> nonprob Execution halted
checking for unstated dependencies in 'tests' ... OK
checking tests ... [6s] OK Running 'testthat.R' [6s]
checking PDF version of manual ... [21s] OK
checking HTML version of manual ... [1s] OK
DONE

Status: 1 ERROR