CRAN Package Check Results for Maintainer ‘Guillaume Boucher <guiboucher8 at gmail.com>’

Last updated on 2025-12-28 03:52:04 CET.

Package	ERROR	NOTE
polypharmacy	1	12

Package polypharmacy

Current CRAN status: ERROR: 1, NOTE: 12

Version: 1.0.0
Check: Rd files
Result: NOTE checkRd: (-1) stat_quantile_prob.Rd:14: Lost braces; missing escapes or markup? 14 | Number {25, 50, 75} | ^ Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64

Version: 1.0.0
Check: examples
Result: ERROR Running examples in 'polypharmacy-Ex.R' failed The error most likely occurred in: > ### Name: ind_simult > ### Title: Assess polypharmacy based on the daily simultaneous consumption > ### of medications > ### Aliases: ind_simult > > ### ** Examples > > rx1 <- data.frame(id = c(1, 1, 2), + code = c("A", "B", "A"), + date = c("2000-01-01", "2000-01-04", "2000-01-08"), + duration = c(5, 7, 5)) > cohort1 <- data.frame(id = as.numeric(1:3), + age = c(45, 12, 89), + sex = c("F", "F", "M")) > rx_proc1 <- data_process(Rx_deliv = rx1, Rx_id = "id", Rx_drug_code = "code", + Rx_drug_deliv = "date", Rx_deliv_dur = "duration", + Cohort = cohort1, Cohort_id = "id", + study_start = "2000-01-01", study_end = "2000-01-15", + cores = 1) Error in `[.data.table`(Rx_deliv, Rx_deliv[, .I[.N > 1], .(id, drug_code)]$V1, : attempt access index 6/6 in VECTOR_ELT Calls: data_process -> data_process.1_core -> [ -> [.data.table Execution halted Flavor: r-devel-windows-x86_64

Version: 1.0.0
Check: tests
Result: ERROR Running 'testthat.R' [3s] Running the tests in 'tests/testthat.R' failed. Complete output: > library(testthat) > library(polypharmacy) > > test_check("polypharmacy") Attaching package: 'data.table' The following object is masked from 'package:base': %notin% Saving _problems/test-data_process-87.R Saving _problems/test-data_process-119.R Saving _problems/test-data_process-146.R Saving _problems/test-data_process-167.R Saving _problems/test-data_process-221.R Saving _problems/test-data_process-259.R Saving _problems/test-data_process-292.R Saving _problems/test-data_process-336.R Saving _problems/test-data_process-388.R Saving _problems/test-ind_simult-17.R Saving _problems/test-ind_stdcontinuous-13.R Saving _problems/test-ind_stdcumul-17.R Saving _problems/test-ind_ucontinuous-17.R Saving _problems/test-ind_wcumul-17.R [ FAIL 14 | WARN 0 | SKIP 0 | PASS 18 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test-data_process.R:68:3'): data_process.hosp_stays ───────────────── Error in ``[.data.table`(Rx_deliv, sunique(c(idx, idx + 1)), `:=`(by_hosp, cumsum(hosp)), .(id, drug_code))`: attempt access index 7/7 in VECTOR_ELT Backtrace: ▆ 1. ├─testthat::expect_equal(...) at test-data_process.R:68:3 2. │ └─testthat::quasi_label(enquo(object), label) 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) 4. └─polypharmacy::data_process(...) 5. └─polypharmacy::data_process.1_core(...) 6. ├─...[] 7. └─data.table:::`[.data.table`(...) ── Error ('test-data_process.R:102:3'): data_process.hosp_stays_many ─────────── Error in ``[.data.table`(Hosp_stays, idx, `:=`(diff, tx_start - shift(tx_end)), .(id))`: attempt access index 3/3 in VECTOR_ELT Backtrace: ▆ 1. ├─testthat::expect_equal(...) at test-data_process.R:102:3 2. │ └─testthat::quasi_label(enquo(object), label) 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) 4. └─polypharmacy::data_process(...) 5. └─polypharmacy::data_process.1_core(...) 6. ├─Hosp_stays[idx, `:=`(diff, tx_start - shift(tx_end)), .(id)] 7. └─data.table:::`[.data.table`(...) ── Error ('test-data_process.R:133:3'): data_process.hosp_stays_more_many ────── Error in ``[.data.table`(Hosp_stays, idx, `:=`(diff, tx_start - shift(tx_end)), .(id))`: attempt access index 3/3 in VECTOR_ELT Backtrace: ▆ 1. ├─testthat::expect_equal(...) at test-data_process.R:133:3 2. │ └─testthat::quasi_label(enquo(object), label) 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) 4. └─polypharmacy::data_process(...) 5. └─polypharmacy::data_process.1_core(...) 6. ├─Hosp_stays[idx, `:=`(diff, tx_start - shift(tx_end)), .(id)] 7. └─data.table:::`[.data.table`(...) ── Error ('test-data_process.R:157:3'): data_process.study_dates ─────────────── Error in ``[.data.table`(Rx_deliv, Rx_deliv[, .I[.N > 1], .(id, drug_code)]$V1, `:=`(diff, tx_start - shift(tx_end) - 1L), .(id, drug_code))`: attempt access index 6/6 in VECTOR_ELT Backtrace: ▆ 1. ├─testthat::expect_equal(...) at test-data_process.R:157:3 2. │ └─testthat::quasi_label(enquo(object), label) 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) 4. └─polypharmacy::data_process(...) 5. └─polypharmacy::data_process.1_core(...) 6. ├─...[] 7. └─data.table:::`[.data.table`(...) ── Error ('test-data_process.R:209:3'): data_process.grace_factr ─────────────── Error in ``[.data.table`(Rx_deliv, Rx_deliv[, .I[.N > 1], .(id, drug_code)]$V1, `:=`(diff, tx_start - shift(tx_end) - 1L), .(id, drug_code))`: attempt access index 6/6 in VECTOR_ELT Backtrace: ▆ 1. ├─testthat::expect_equal(...) at test-data_process.R:209:3 2. │ └─testthat::quasi_label(enquo(object), label) 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) 4. └─polypharmacy::data_process(...) 5. └─polypharmacy::data_process.1_core(...) 6. ├─...[] 7. └─data.table:::`[.data.table`(...) ── Error ('test-data_process.R:250:3'): data_process.grace_cst ───────────────── Error in ``[.data.table`(Rx_deliv, Rx_deliv[, .I[.N > 1], .(id, drug_code)]$V1, `:=`(diff, tx_start - shift(tx_end) - 1L), .(id, drug_code))`: attempt access index 6/6 in VECTOR_ELT Backtrace: ▆ 1. ├─testthat::expect_equal(...) at test-data_process.R:250:3 2. │ └─testthat::quasi_label(enquo(object), label) 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) 4. └─polypharmacy::data_process(...) 5. └─polypharmacy::data_process.1_core(...) 6. ├─...[] 7. └─data.table:::`[.data.table`(...) ── Error ('test-data_process.R:283:3'): data_process.grace_fctr_cst ──────────── Error in ``[.data.table`(Rx_deliv, Rx_deliv[, .I[.N > 1], .(id, drug_code)]$V1, `:=`(diff, tx_start - shift(tx_end) - 1L), .(id, drug_code))`: attempt access index 6/6 in VECTOR_ELT Backtrace: ▆ 1. ├─testthat::expect_equal(...) at test-data_process.R:283:3 2. │ └─testthat::quasi_label(enquo(object), label) 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) 4. └─polypharmacy::data_process(...) 5. └─polypharmacy::data_process.1_core(...) 6. ├─...[] 7. └─data.table:::`[.data.table`(...) ── Error ('test-data_process.R:324:3'): data_process.max_reserve ─────────────── Error in ``[.data.table`(Rx_deliv, Rx_deliv[, .I[.N > 1], .(id, drug_code)]$V1, `:=`(diff, tx_start - shift(tx_end) - 1L), .(id, drug_code))`: attempt access index 6/6 in VECTOR_ELT Backtrace: ▆ 1. ├─testthat::expect_equal(...) at test-data_process.R:324:3 2. │ └─testthat::quasi_label(enquo(object), label) 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) 4. └─polypharmacy::data_process(...) 5. └─polypharmacy::data_process.1_core(...) 6. ├─...[] 7. └─data.table:::`[.data.table`(...) ── Error ('test-data_process.R:375:3'): data_process.hospit_grace ────────────── Error in ``[.data.table`(Hosp_stays, idx, `:=`(diff, tx_start - shift(tx_end)), .(id))`: attempt access index 3/3 in VECTOR_ELT Backtrace: ▆ 1. ├─testthat::expect_equal(...) at test-data_process.R:375:3 2. │ └─testthat::quasi_label(enquo(object), label) 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) 4. └─polypharmacy::data_process(...) 5. └─polypharmacy::data_process.1_core(...) 6. ├─Hosp_stays[idx, `:=`(diff, tx_start - shift(tx_end)), .(id)] 7. └─data.table:::`[.data.table`(...) ── Error ('test-ind_simult.R:13:3'): ind_simult ──────────────────────────────── Error in ``[.data.table`(Rx_deliv, Rx_deliv[, .I[.N > 1], .(id, drug_code)]$V1, `:=`(diff, tx_start - shift(tx_end) - 1L), .(id, drug_code))`: attempt access index 6/6 in VECTOR_ELT Backtrace: ▆ 1. └─polypharmacy::data_process(...) at test-ind_simult.R:13:3 2. └─polypharmacy::data_process.1_core(...) 3. ├─...[] 4. └─data.table:::`[.data.table`(...) ── Error ('test-ind_stdcontinuous.R:9:3'): ind_stdcontinuous ─────────────────── Error in ``[.data.table`(Rx_deliv, Rx_deliv[, .I[.N > 1], .(id, drug_code)]$V1, `:=`(diff, tx_start - shift(tx_end) - 1L), .(id, drug_code))`: attempt access index 6/6 in VECTOR_ELT Backtrace: ▆ 1. └─polypharmacy::data_process(...) at test-ind_stdcontinuous.R:9:3 2. └─polypharmacy::data_process.1_core(...) 3. ├─...[] 4. └─data.table:::`[.data.table`(...) ── Error ('test-ind_stdcumul.R:13:3'): ind_stdcumul ──────────────────────────── Error in ``[.data.table`(Rx_deliv, Rx_deliv[, .I[.N > 1], .(id, drug_code)]$V1, `:=`(diff, tx_start - shift(tx_end) - 1L), .(id, drug_code))`: attempt access index 6/6 in VECTOR_ELT Backtrace: ▆ 1. └─polypharmacy::data_process(...) at test-ind_stdcumul.R:13:3 2. └─polypharmacy::data_process.1_core(...) 3. ├─...[] 4. └─data.table:::`[.data.table`(...) ── Error ('test-ind_ucontinuous.R:13:3'): ind_ucontinuous ────────────────────── Error in ``[.data.table`(Rx_deliv, Rx_deliv[, .I[.N > 1], .(id, drug_code)]$V1, `:=`(diff, tx_start - shift(tx_end) - 1L), .(id, drug_code))`: attempt access index 6/6 in VECTOR_ELT Backtrace: ▆ 1. └─polypharmacy::data_process(...) at test-ind_ucontinuous.R:13:3 2. └─polypharmacy::data_process.1_core(...) 3. ├─...[] 4. └─data.table:::`[.data.table`(...) ── Error ('test-ind_wcumul.R:13:3'): ind_wcumul ──────────────────────────────── Error in ``[.data.table`(Rx_deliv, Rx_deliv[, .I[.N > 1], .(id, drug_code)]$V1, `:=`(diff, tx_start - shift(tx_end) - 1L), .(id, drug_code))`: attempt access index 6/6 in VECTOR_ELT Backtrace: ▆ 1. └─polypharmacy::data_process(...) at test-ind_wcumul.R:13:3 2. └─polypharmacy::data_process.1_core(...) 3. ├─...[] 4. └─data.table:::`[.data.table`(...) [ FAIL 14 | WARN 0 | SKIP 0 | PASS 18 ] Error: ! Test failures. Execution halted Flavor: r-devel-windows-x86_64