CRAN Package Check Results for Maintainer ‘John Harrold <john.m.harrold at gmail.com>’

Last updated on 2025-12-04 09:50:25 CET.

Package	ERROR	NOTE	OK
formods			13
nlmixr2rpt	1		12
onbrand			13
ruminate			13
ubiquity		3	10

Package formods

Current CRAN status: OK: 13

Package nlmixr2rpt

Current CRAN status: ERROR: 1, OK: 12

Version: 0.2.2
Check: examples
Result: ERROR Running examples in ‘nlmixr2rpt-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: build_figures > ### Title: Generates Figures for an 'nlmixr2' Report > ### Aliases: build_figures > > ### ** Examples > > # We need an onbrand object to use below > library(onbrand) > obnd = read_template( + template = system.file(package="nlmixr2rpt", "templates","nlmixr_obnd_template.docx"), + mapping = system.file(package="nlmixr2rpt", "templates","nlmixr_obnd_template.yaml")) > > # We also need an nlmixr fit object > fit = fetch_fit_example() > > # This reads in the report details as well > rptdetails = yaml_read_fit( + obnd = obnd, + rptyaml = system.file(package="nlmixr2rpt", "examples", "report_fit_test.yaml"), + fit = fit)$rptdetails > > # Now we will build the figures > bfres = build_figures(obnd = obnd, + fit = fit, + rptdetails = rptdetails) Attaching package: ‘xpose’ The following object is masked from ‘package:stats’: filter Error : package "qs" needed for this function to work Warning: cannot deserialize object 'origData'; please ensure the 'qs2' or 'qs' package is installed Warning in seq_len(nrow(.origData)) : first element used of 'length.out' argument Error in seq_len(nrow(.origData)) : argument must be coercible to non-negative integer Calls: build_figures ... nmObjGetData -> nmObjGetData.dataMergeInner -> .dataMergeStub Execution halted Flavor: r-release-linux-x86_64

Version: 0.2.2
Check: tests
Result: ERROR Running ‘testthat.R’ [6s/7s] Running the tests in ‘tests/testthat.R’ failed. Complete output: > # This file is part of the standard setup for testthat. > # It is recommended that you do not modify it. > # > # Where should you do additional test configuration? > # Learn more about the roles of various files in: > # * https://r-pkgs.org/tests.html > # * https://testthat.r-lib.org/reference/test_package.html#special-files > > library(testthat) > library(nlmixr2rpt) > > test_check("nlmixr2rpt") Error : package "qs" needed for this function to work Saving _problems/test-rptnlmixr-41.R Error : package "qs" needed for this function to work Saving _problems/test-rptnlmixr-119.R Error : package "qs" needed for this function to work Error : package "qs" needed for this function to work Error : package "qs" needed for this function to work Error : package "qs" needed for this function to work Error : package "qs" needed for this function to work Saving _problems/test-rptnlmixr-154.R [ FAIL 3 | WARN 0 | SKIP 0 | PASS 6 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Error ('test-rptnlmixr.R:31:3'): build_figures ────────────────────────────── Error in `seq_len(nrow(.origData))`: argument must be coercible to non-negative integer Backtrace: ▆ 1. ├─base::suppressWarnings(...) at test-rptnlmixr.R:31:3 2. │ └─base::withCallingHandlers(...) 3. ├─base::suppressMessages(...) 4. │ └─base::withCallingHandlers(...) 5. └─nlmixr2rpt::build_figures(...) 6. ├─base::eval(parse(text = preamble_str)) 7. │ └─base::eval(parse(text = preamble_str)) 8. └─xpose.nlmixr2::xpose_data_nlmixr(fit) 9. ├─obj$dataMergeInner 10. └─nlmixr2est:::`$.nlmixr2FitData`(obj, "dataMergeInner") 11. ├─nlmixr2est::nmObjGetData(.lst) 12. └─nlmixr2est:::nmObjGetData.dataMergeInner(.lst) 13. └─nlmixr2est:::.dataMergeStub(.obj, preferFit = FALSE) ── Error ('test-rptnlmixr.R:98:3'): PowerPoint Workflow ──────────────────────── Error in `seq_len(nrow(.origData))`: argument must be coercible to non-negative integer Backtrace: ▆ 1. ├─base::suppressMessages(...) at test-rptnlmixr.R:98:3 2. │ └─base::withCallingHandlers(...) 3. ├─base::suppressWarnings(...) 4. │ └─base::withCallingHandlers(...) 5. └─nlmixr2rpt::report_fit(...) 6. └─nlmixr2rpt::build_figures(...) 7. ├─base::eval(parse(text = preamble_str)) 8. │ └─base::eval(parse(text = preamble_str)) 9. └─xpose.nlmixr2::xpose_data_nlmixr(fit) 10. ├─obj$dataMergeInner 11. └─nlmixr2est:::`$.nlmixr2FitData`(obj, "dataMergeInner") 12. ├─nlmixr2est::nmObjGetData(.lst) 13. └─nlmixr2est:::nmObjGetData.dataMergeInner(.lst) 14. └─nlmixr2est:::.dataMergeStub(.obj, preferFit = FALSE) ── Error ('test-rptnlmixr.R:134:3'): Word Workflow ───────────────────────────── Error in `seq_len(nrow(.origData))`: argument must be coercible to non-negative integer Backtrace: ▆ 1. ├─base::suppressMessages(...) at test-rptnlmixr.R:134:3 2. │ └─base::withCallingHandlers(...) 3. ├─base::suppressWarnings(...) 4. │ └─base::withCallingHandlers(...) 5. └─nlmixr2rpt::report_fit(...) 6. └─nlmixr2rpt::build_figures(...) 7. ├─base::eval(parse(text = preamble_str)) 8. │ └─base::eval(parse(text = preamble_str)) 9. └─xpose.nlmixr2::xpose_data_nlmixr(fit) 10. ├─obj$dataMergeInner 11. └─nlmixr2est:::`$.nlmixr2FitData`(obj, "dataMergeInner") 12. ├─nlmixr2est::nmObjGetData(.lst) 13. └─nlmixr2est:::nmObjGetData.dataMergeInner(.lst) 14. └─nlmixr2est:::.dataMergeStub(.obj, preferFit = FALSE) [ FAIL 3 | WARN 0 | SKIP 0 | PASS 6 ] Error: ! Test failures. Execution halted Flavor: r-release-linux-x86_64

Version: 0.2.2
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: ... --- re-building ‘Accessing_Figures_and_Tables.Rmd’ using rmarkdown Quitting from Accessing_Figures_and_Tables.Rmd:58-67 [unnamed-chunk-5] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `seq_len()`: ! argument must be coercible to non-negative integer --- Backtrace: ▆ 1. └─nlmixr2rpt::build_figures(obnd = obnd, fit = fit, rptdetails = rptdetails) 2. ├─base::eval(parse(text = preamble_str)) 3. │ └─base::eval(parse(text = preamble_str)) 4. └─xpose.nlmixr2::xpose_data_nlmixr(fit) 5. ├─obj$dataMergeInner 6. └─nlmixr2est:::`$.nlmixr2FitData`(obj, "dataMergeInner") 7. ├─nlmixr2est::nmObjGetData(.lst) 8. └─nlmixr2est:::nmObjGetData.dataMergeInner(.lst) 9. └─nlmixr2est:::.dataMergeStub(.obj, preferFit = FALSE) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'Accessing_Figures_and_Tables.Rmd' failed with diagnostics: argument must be coercible to non-negative integer --- failed re-building ‘Accessing_Figures_and_Tables.Rmd’ --- re-building ‘Reporting_nlmixr_Fit_Results.Rmd’ using rmarkdown [WARNING] Deprecated: --highlight-style. Use --syntax-highlighting instead. --- finished re-building ‘Reporting_nlmixr_Fit_Results.Rmd’ SUMMARY: processing the following file failed: ‘Accessing_Figures_and_Tables.Rmd’ Error: Vignette re-building failed. Execution halted Flavor: r-release-linux-x86_64

Package onbrand

Current CRAN status: OK: 13

Package ruminate

Current CRAN status: OK: 13

Package ubiquity

Current CRAN status: NOTE: 3, OK: 10

Version: 2.1.0
Check: installed package size
Result: NOTE installed size is 7.2Mb sub-directories of 1Mb or more: doc 4.5Mb ubinc 2.0Mb Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64