• using R Under development (unstable) (2025-12-18 r89199)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     Debian clang version 21.1.7 (1)     Debian flang version 21.1.7 (1)
• running under: Debian GNU/Linux forky/sid
• using session charset: UTF-8
• checking for file ‘akiFlagger/DESCRIPTION’ ... OK
• this is package ‘akiFlagger’ version ‘0.3.0’
• package encoding: UTF-8
• checking CRAN incoming feasibility ... [1s/1s] OK
• 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 executable files ... OK
• checking for hidden files and directories ... OK
• checking for portable file names ... OK
• checking for sufficient/correct file permissions ... OK
• checking whether package ‘akiFlagger’ can be installed ... OK See the install log for details.
• checking package directory ... OK
• checking for future file timestamps ... 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 ... [1s/2s] OK
• checking whether the package can be loaded with stated dependencies ... [1s/1s] OK
• checking whether the package can be unloaded cleanly ... [1s/1s] OK
• checking whether the namespace can be loaded with stated dependencies ... [1s/1s] OK
• checking whether the namespace can be unloaded cleanly ... [1s/2s] OK
• checking loading without being on the library search path ... [2s/2s] 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 ... [8s/11s] OK
• checking Rd files ... [0s/0s] OK
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• checking Rd line widths ... 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 ... [0s/0s] OK
• checking LazyData ... OK
• checking data for ASCII and uncompressed saves ... OK
• checking examples ... [2s/2s] ERROR Running examples in ‘akiFlagger-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: returnAKIpatients > ### Title: Flag patients for AKI > ### Aliases: returnAKIpatients > > ### ** Examples > > returnAKIpatients(toy) Error in `[.data.table`(df, , `:=`(min_creat48, sapply(.SD[, time], function(x) min(creatinine[between(.SD[, :   attempt access index 4/4 in VECTOR_ELT Calls: returnAKIpatients -> [ -> [.data.table Execution halted
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [2s/4s] ERROR   Running ‘testthat.R’ [2s/3s] Running the tests in ‘tests/testthat.R’ failed. Complete output:   > library(testthat)   > library(akiFlagger)   >   > test_check("akiFlagger")   Saving _problems/test-returnAKIpatients-24.R   Saving _problems/test-returnAKIpatients-45.R   Saving _problems/test-returnAKIpatients-71.R   Saving _problems/test-returnAKIpatients-96.R   [ FAIL 4 | WARN 0 | SKIP 0 | PASS 2 ]      ══ Failed tests ════════════════════════════════════════════════════════════════   ── Error ('test-returnAKIpatients.R:24:3'): Patient A - rolling minimum ────────   Error in ``[.data.table`(df, , `:=`(min_creat48, sapply(.SD[, time], function(x) min(creatinine[between(.SD[, time], x - window1, x)]))), by = patient_id)`: attempt access index 4/4 in VECTOR_ELT   Backtrace:       ▆    1. └─akiFlagger::returnAKIpatients(df) at test-returnAKIpatients.R:24:3    2. ├─...[]    3. └─data.table:::`[.data.table`(...)   ── Error ('test-returnAKIpatients.R:45:3'): Patient A - historical baseline ────   Error in ``[.data.table`(df, , `:=`(min_creat48, sapply(.SD[, time], function(x) min(creatinine[between(.SD[, time], x - window1, x)]))), by = patient_id)`: attempt access index 4/4 in VECTOR_ELT   Backtrace:       ▆    1. └─akiFlagger::returnAKIpatients(df, HB_trumping = T) at test-returnAKIpatients.R:45:3    2. ├─...[]    3. └─data.table:::`[.data.table`(...)   ── Error ('test-returnAKIpatients.R:71:3'): Patient B - rolling minimum ────────   Error in ``[.data.table`(df, , `:=`(min_creat48, sapply(.SD[, time], function(x) min(creatinine[between(.SD[, time], x - window1, x)]))), by = patient_id)`: attempt access index 4/4 in VECTOR_ELT   Backtrace:       ▆    1. └─akiFlagger::returnAKIpatients(df, HB_trumping = F) at test-returnAKIpatients.R:71:3    2. ├─...[]    3. └─data.table:::`[.data.table`(...)   ── Error ('test-returnAKIpatients.R:96:3'): Patient B - historical baseline ────   Error in ``[.data.table`(df, , `:=`(min_creat48, sapply(.SD[, time], function(x) min(creatinine[between(.SD[, time], x - window1, x)]))), by = patient_id)`: attempt access index 4/4 in VECTOR_ELT   Backtrace:       ▆    1. └─akiFlagger::returnAKIpatients(df, HB_trumping = T) at test-returnAKIpatients.R:96:3    2. ├─...[]    3. └─data.table:::`[.data.table`(...)      [ FAIL 4 | WARN 0 | SKIP 0 | PASS 2 ]   Error:   ! Test failures.   Execution halted
• checking PDF version of manual ... [4s/5s] OK
• checking HTML version of manual ... [0s/0s] OK
• checking for non-standard things in the check directory ... OK
• DONE

Status: 2 ERRORs