- using R Under development (unstable) (2024-12-07 r87428)
- using platform: x86_64-pc-linux-gnu
- R was compiled by
Debian clang version 19.1.4 (1)
Debian flang-new version 19.1.4 (1)
- running under: Debian GNU/Linux trixie/sid
- using session charset: UTF-8
- checking for file ‘EHR/DESCRIPTION’ ... OK
- this is package ‘EHR’ version ‘0.4-11’
- 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 serialization versions ... OK
- checking whether package ‘EHR’ can be installed ... OK
See the install log for details.
- checking package directory ... OK
- checking for future file timestamps ... OK
- checking ‘build’ 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 ... [1s/1s] 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/1s] OK
- checking loading without being on the library search path ... [1s/1s] OK
- checking whether startup messages can be suppressed ... [1s/1s] 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 ... [24s/31s] OK
- checking Rd files ... [1s/1s] NOTE
checkRd: (-1) build_lastdose.Rd:10: Lost braces
10 | code{build_lastdose}: build PK oral with lastdose information
| ^
checkRd: (-1) mod-internal.Rd:18: Lost braces
18 | code{colflow_mod}: build a comparison of potentially duplicate flow data
| ^
checkRd: (-1) mod-internal.Rd:21: Lost braces
21 | code{findMedFlowRow_mod}: find row numbers for matching ID and time
| ^
checkRd: (-1) mod-internal.Rd:23: Lost braces
23 | code{flowData_mod}: correct flow data
| ^
checkRd: (-1) mod-internal.Rd:25: Lost braces
25 | code{concData_mod}: correct concentration data
| ^
checkRd: (-1) mod-internal.Rd:27: Lost braces
27 | code{infusionData_mod}: combine flow and MAR data; standardize hourly rate,
| ^
checkRd: (-1) mod-internal.Rd:30: Lost braces
30 | code{resolveDoseDups_mod}: correct duplicated infusion and bolus doses
| ^
checkRd: (-1) mod-internal.Rd:32: Lost braces
32 | code{writeCheckData}
| ^
checkRd: (-1) mod-internal.Rd:34: Lost braces
34 | code{processErx}: prepare e-prescription data
| ^
checkRd: (-1) mod-internal.Rd:36: Lost braces
36 | code{processErxAddl}: additional processing, checking for connected observations
| ^
checkRd: (-1) mod-internal.Rd:38: Lost braces
38 | code{validateColumns}: check columns are in place
| ^
checkRd: (-1) mod-internal.Rd:40: Lost braces
40 | code{read}: generic read function
| ^
checkRd: (-1) mod-internal.Rd:42: Lost braces
42 | code{setDoseMar}: set unit/rate/date columns
| ^
checkRd: (-1) pk-internal.Rd:19: Lost braces
19 | code{takeClosest}: take value at nearest time
| ^
checkRd: (-1) pk-internal.Rd:22: Lost braces
22 | code{takeClosestTime}: find nearest time
| ^
checkRd: (-1) pk-internal.Rd:24: Lost braces
24 | code{daysDiff}: number of days between two dates
| ^
checkRd: (-1) pk-internal.Rd:26: Lost braces
26 | code{minDiff}: difference (in minutes) of time vector
| ^
checkRd: (-1) pk-internal.Rd:28: Lost braces
28 | code{fixDates}: add leading zeroes to date
| ^
checkRd: (-1) pk-internal.Rd:30: Lost braces
30 | code{joinFlowMar}: rbind two data sets
| ^
checkRd: (-1) pk-internal.Rd:32: Lost braces
32 | code{updateInterval_mod}: replace maxint with difference between surgery time
| ^
checkRd: (-1) pk-internal.Rd:35: Lost braces
35 | code{fix_serum_time}: create time variable
| ^
checkRd: (-1) pk-internal.Rd:37: Lost braces
37 | code{merge_by_time}: impute in x by closest time in y
| ^
checkRd: (-1) pk-internal.Rd:39: Lost braces
39 | code{merge_inf_bolus}: combine infusion and bolus into one hourly dose file
| ^
checkRd: (-1) pk-internal.Rd:41: Lost braces
41 | code{addZeroDose}: add rows of zero dose, after a gap
| ^
checkRd: (-1) pk-internal.Rd:43: Lost braces
43 | code{pkdata}
| ^
- checking Rd metadata ... OK
- 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 ... [2s/2s] OK
- checking data for ASCII and uncompressed saves ... OK
- checking sizes of PDF files under ‘inst/doc’ ... OK
- checking installed files from ‘inst/doc’ ... OK
- checking files in ‘vignettes’ ... OK
- checking examples ... [14s/17s] OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
Logistf 4.869 0.405 6.694
- checking for unstated dependencies in vignettes ... OK
- checking package vignettes ... OK
- checking re-building of vignette outputs ... [145s/213s] OK
- checking PDF version of manual ... [8s/11s] OK
- checking HTML version of manual ... [2s/4s] OK
- checking for non-standard things in the check directory ... OK
- DONE
Status: 1 NOTE