• using R version 4.5.0 beta (2025-03-29 r88069)
  • using platform: aarch64-apple-darwin20
  • R was compiled by     Apple clang version 14.0.0 (clang-1400.0.29.202)     GNU Fortran (GCC) 14.2.0
  • running under: macOS Ventura 13.4
  • using session charset: UTF-8
  • checking for file ‘pkgload/DESCRIPTION’ ... OK
  • this is package ‘pkgload’ version ‘1.4.0’
  • 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 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 ‘pkgload’ can be installed ... [2s/2s] 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 ... [0s/0s] OK
  • checking whether the package can be loaded with stated dependencies ... [0s/0s] OK
  • checking whether the package can be unloaded cleanly ... [0s/0s] OK
  • checking whether the namespace can be loaded with stated dependencies ... [0s/0s] OK
  • checking whether the namespace can be unloaded cleanly ... [0s/0s] OK
  • checking loading without being on the library search path ... [0s/0s] OK
  • checking whether startup messages can be suppressed ... [0s/0s] 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 ... [3s/3s] OK
  • checking Rd files ... [0s/0s] 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 examples ... [0s/1s] OK
  • checking for unstated dependencies in ‘tests’ ... OK
  • checking tests ... [103s/147s] ERROR   Running ‘testthat.R’ [103s/146s] Running the tests in ‘tests/testthat.R’ failed. Complete output:   > library(testthat)   > library(pkgload)   >   > # Needed so that install.packages works correctly   > Sys.setenv("R_TESTS" = "")   >   > test_check("pkgload")   Starting 2 test processes   [ FAIL 1 | WARN 0 | SKIP 15 | PASS 344 ]      ══ Skipped tests (15) ══════════════════════════════════════════════════════════   • "pkgload" %in% dev_packages() is not TRUE (1): 'test-shim.R:126:3'   • On CRAN (14): 'test-depend.R:5:3', 'test-depend.R:15:3',     'test-depend.R:43:3', 'test-load-hooks.R:155:3', 'test-load.R:44:3',     'test-namespace.R:140:3', 'test-shim.R:59:3', 'test-shim.R:135:3',     'test-source.R:2:3', 'test-help.R:57:3', 'test-help.R:117:3',     'test-help.R:128:3', 'test-help.R:141:3', 'test-help.R:162:3'      ══ Failed tests ════════════════════════════════════════════════════════════════   ── Failure ('test-help.R:48:3'): shim_question behaves like util::? for searches ──   shim_question(`?`(lm)) (`actual`) not identical to utils::`?`(`?`(lm)) (`expected`).      attr(actual$matches, 'row.names')[18948:19009] vs attr(expected$matches, 'row.names')[18948:18950]     18948     18949     18950   - 18951   - 18952   - 18953   - 18954   - 18955   - 18956   - 18957   and 52 more ...      actual$matches vs expected$matches                                                                                                      Topic Title Name ID Package LibPath Type Field Entry     actual$matches[4021, ] eight_elman the original SNNS eight elman example, using the RSNNS high-level api (rsnns) eight_elman 4917/86 RSNNS /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RSNNS demo Title the original SNNS eight elman example, using the RSNNS high-level api (rsnns)     actual$matches[4022, ] eight_elmanSnnsR the original SNNS eight elman example, using the RSNNS low-level api (SnnsR) eight_elmanSnnsR 4917/87 RSNNS /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RSNNS demo alias eight_elmanSnnsR     actual$matches[4023, ] eight_elmanSnnsR the original SNNS eight elman example, using the RSNNS low-level api (SnnsR) eight_elmanSnnsR 4917/87 RSNNS /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RSNNS demo Title the original SNNS eight elman example, using the RSNNS low-level api (SnnsR)   - actual$matches[4024, ] LogisticRegressionFast Logistic Regression implementation that uses R's glm LogisticRegressionFast 4920/23 RSSL /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RSSL help Title Logistic Regression implementation that uses R's glm   + expected$matches[4024, ] LogisticRegressionFast Logistic Regression implementation that uses R's glm LogisticRegressionFast 4921/23 RSSL /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RSSL help Title Logistic Regression implementation that uses R's glm   - actual$matches[4025, ] CalculateLModeCCFI Calculates L-Mode CCFI CalculateLModeCCFI 4952/10 RTaxometrics /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RTaxometrics help alias CalculateLModeCCFI   + expected$matches[4025, ] CalculateLModeCCFI Calculates L-Mode CCFI CalculateLModeCCFI 4953/10 RTaxometrics /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RTaxometrics help alias CalculateLModeCCFI   - actual$matches[4026, ] EstimateLMode Estimates L-Mode base rate EstimateLMode 4952/26 RTaxometrics /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RTaxometrics help alias EstimateLMode   + expected$matches[4026, ] EstimateLMode Estimates L-Mode base rate EstimateLMode 4953/26 RTaxometrics /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RTaxometrics help alias EstimateLMode   - actual$matches[4027, ] RunLMode Performs L-Mode RunLMode 4952/37 RTaxometrics /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RTaxometrics help alias RunLMode   + expected$matches[4027, ] RunLMode Performs L-Mode RunLMode 4953/37 RTaxometrics /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RTaxometrics help alias RunLMode   - actual$matches[4028, ] Anova.clm Anova Tables for Cumulative Link (Mixed) Models Anova.clm 4957/1 RVAideMemoire /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RVAideMemoire help alias Anova.clm   + expected$matches[4028, ] Anova.clm Anova Tables for Cumulative Link (Mixed) Models Anova.clm 4958/1 RVAideMemoire /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RVAideMemoire help alias Anova.clm   - actual$matches[4029, ] Anova.clm Anova Tables for Cumulative Link (Mixed) Models Anova.clm 4957/1 RVAideMemoire /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RVAideMemoire help alias Anova.clmm   + expected$matches[4029, ] Anova.clm Anova Tables for Cumulative Link (Mixed) Models Anova.clm 4958/1 RVAideMemoire /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RVAideMemoire help alias Anova.clmm   - actual$matches[4030, ] logis.noise Creating a nls model for logistic regression from fitted values of a glm model logis.noise 4957/66 RVAideMemoire /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RVAideMemoire help Title Creating a nls model for logistic regression from fitted values of a glm model   + expected$matches[4030, ] logis.noise Creating a nls model for logistic regression from fitted values of a glm model logis.noise 4958/66 RVAideMemoire /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/RVAideMemoire help Title Creating a nls model for logistic regression from fitted values of a glm model   and 1491 more ...      actual$matches vs expected$matches                                                                                                      Topic Title Name ID Package LibPath Type Field Entry     actual$matches[11790, ] lmboot-package Bootstrap in Linear Models lmboot-package 13967/4 lmboot /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/lmboot help alias lmboot     actual$matches[11791, ] lmds Landmark MDS lmds 13968/2 lmds /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/lmds help alias lmds     actual$matches[11792, ] lmds Landmark MDS lmds 13968/2 lmds /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/lmds help alias lmds-package   - actual$matches[11793, ] confint.merMod Compute Confidence Intervals for Parameters of a [ng]lmer Fit confint.merMod 13969/17 lme4 /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/lme4 help Title Compute Confidence Intervals for Parameters of a [ng]lmer Fit   + expected$matches[11793, ] getMME Build the mixed model equations from a lmebreed object getMME 13969/27 lme4breeding /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/lme4breeding help Title Build the mixed model equations from a lmebreed object   - actual$matches[11794, ] glmFamily-class Class '"glmFamily"' - a reference class for 'family' glmFamily-class 13969/29 lme4 /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/lme4 help alias glmFamily-class   + expected$matches[11794, ] lme4breeding *L*inear *m*ixed *e*quations *4* *B*reeding lme4breeding-package 13969/30 lme4breeding /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/lme4breeding help alias lme4breeding   - actual$matches[11795, ] glmFamily-class Class '"glmFamily"' - a reference class for 'family' glmFamily-class 13969/29 lme4 /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/lme4 help Title Class '"glmFamily"' - a reference class for 'family'   + expected$matches[11795, ] lmebreed-class Relationship-based mixed-effects model fits lmebreed-class 13969/31 lme4breeding /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/lme4breeding help alias lmebreed-class   - actual$matches[11796, ] glmFamily Generator object for the 'glmFamily' class glmFamily 13969/30 lme4 /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/lme4 help alias glmFamily   + expected$matches[11796, ] lmebreed-class Relationship-based mixed-effects model fits lmebreed-class 13969/31 lme4breeding /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/lme4breeding help alias fitted,lmebreed-method   - actual$matches[11797, ] glmFamily Generator object for the 'glmFamily' class glmFamily 13969/30 lme4 /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/lme4 help Title Generator object for the 'glmFamily' class   + expected$matches[11797, ] lmebreed-class Relationship-based mixed-effects model fits lmebreed-class 13969/31 lme4breeding /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/lme4breeding help alias ranef,lmebreed-method   - actual$matches[11798, ] glmer Fitting Generalized Linear Mixed-Effects Models glmer 13969/31 lme4 /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/lme4 help alias glmer   + expected$matches[11798, ] lmebreed-class Relationship-based mixed-effects model fits lmebreed-class 13969/31 lme4breeding /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/lme4breeding help alias residuals,lmebreed-method   - actual$matches[11799, ] glmer Fitting Generalized Linear Mixed-Effects Models glmer 13969/31 lme4 /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/lme4 help concept GLMM   + expected$matches[11799, ] lmebreed Fit mixed-effects models incorporating relationships lmebreed 13969/32 lme4breeding /Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/lme4breeding help alias lmebreed   and 7210 more ...              actual$matches$Topic | expected$matches$Topic   [11790] "lmboot-package" | "lmboot-package" [11790]   [11791] "lmds" | "lmds" [11791]   [11792] "lmds" | "lmds" [11792]   [11793] "confint.merMod" -   [11794] "glmFamily-class" -   [11795] "glmFamily-class" -   [11796] "glmFamily" -   [11797] "glmFamily" -   [11798] "glmer" -   [11799] "glmer" -       ... ... ... and 55 more ...      actual$matches$Title[11790:11854] vs expected$matches$Title[11790:11795]     "Bootstrap in Linear Models"     "Landmark MDS"     "Landmark MDS"   - "Compute Confidence Intervals for Parameters of a [ng]lmer Fit"   - "Class '\"glmFamily\"' - a reference class for 'family'"   - "Class '\"glmFamily\"' - a reference class for 'family'"   - "Generator object for the 'glmFamily' class"   - "Generator object for the 'glmFamily' class"   - "Fitting Generalized Linear Mixed-Effects Models"   - "Fitting Generalized Linear Mixed-Effects Models"   and 55 more ...              actual$matches$Name | expected$matches$Name   [11790] "lmboot-package" | "lmboot-package" [11790]   [11791] "lmds" | "lmds" [11791]   [11792] "lmds" | "lmds" [11792]   [11793] "confint.merMod" -   [11794] "glmFamily-class" -   [11795] "glmFamily-class" -   [11796] "glmFamily" -   [11797] "glmFamily" -   [11798] "glmer" -   [11799] "glmer" -       ... ... ... and 55 more ...             actual$matches$ID | expected$matches$ID   [4021] "4917/86" | "4917/86" [4021]   [4022] "4917/87" | "4917/87" [4022]   [4023] "4917/87" | "4917/87" [4023]   [4024] "4920/23" - "4921/23" [4024]   [4025] "4952/10" - "4953/10" [4025]   [4026] "4952/26" - "4953/26" [4026]   [4027] "4952/37" - "4953/37" [4027]   [4028] "4957/1" - "4958/1" [4028]   [4029] "4957/1" - "4958/1" [4029]   [4030] "4957/66" - "4958/66" [4030]      ... ... ... and 1491 more ...              actual$matches$ID | expected$matches$ID   [11790] "13967/4" | "13967/4" [11790]   [11791] "13968/2" | "13968/2" [11791]   [11792] "13968/2" | "13968/2" [11792]   [11793] "13969/17" - "13969/27" [11793]   [11794] "13969/29" - "13969/30" [11794]   [11795] "13969/29" - "13969/31" [11795]   [11796] "13969/30" - "13969/31" [11796]   [11797] "13969/30" - "13969/31" [11797]   [11798] "13969/31" | "13969/31" [11798]   [11799] "13969/31" - "13969/32" [11799]       ... ... ... and 7210 more ...              actual$matches$Package | expected$matches$Package   [11790] "lmboot" | "lmboot" [11790]   [11791] "lmds" | "lmds" [11791]   [11792] "lmds" | "lmds" [11792]   [11793] "lme4" -   [11794] "lme4" -   [11795] "lme4" -   [11796] "lme4" -   [11797] "lme4" -   [11798] "lme4" -   [11799] "lme4" -       ... ... ... and 55 more ...      actual$matches$LibPath[11790:11854] vs expected$matches$LibPath[11790:11795]     "/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/lmboot"     "/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/lmds"     "/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/lmds"   - "/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/lme4"   - "/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/lme4"   - "/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/lme4"   - "/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/lme4"   - "/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/lme4"   - "/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/lme4"   - "/Volumes/Builds/packages/big-sur-arm64/Rlib/4.5/lme4"   and 55 more ...              actual$matches$Type | expected$matches$Type   [11797] "help" | "help" [11797]   [11798] "help" | "help" [11798]   [11799] "help" | "help" [11799]   [11800] "help" -   [11801] "help" -   [11802] "help" -   [11803] "help" -   [11804] "help" -   [11805] "help" -   [11806] "help" -       ... ... ... and 55 more ...              actual$matches$Field | expected$matches$Field   [11792] "alias" | "alias" [11792]   [11793] "Title" | "Title" [11793]   [11794] "alias" | "alias" [11794]   [11795] "Title" -   [11796] "alias" -   [11797] "Title" -   [11798] "alias" -   [11799] "concept" -   [11800] "alias" | "alias" [11795]   [11801] "concept" -       ... ... ... and 56 more ...              actual$matches$Field | expected$matches$Field   [11861] "alias" | "alias" [11820]   [11862] "Title" | "Title" [11821]   [11863] "alias" | "alias" [11822]   [11864] "Title" -   [11865] "alias" | "alias" [11823]   [11866] "Title" -   [11867] "Title" -   [11868] "alias" | "alias" [11824]   [11869] "alias" | "alias" [11825]   [11870] "alias" | "alias" [11826]       ... ... ... and 20 more ...      actual$matches$Entry[11790:11854] vs expected$matches$Entry[11790:11795]     "lmboot"     "lmds"     "lmds-package"   - "Compute Confidence Intervals for Parameters of a [ng]lmer Fit"   - "glmFamily-class"   - "Class '\"glmFamily\"' - a reference class for 'family'"   - "glmFamily"   - "Generator object for the 'glmFamily' class"   - "glmer"   - "GLMM"   and 55 more ...      [ FAIL 1 | WARN 0 | SKIP 15 | PASS 344 ]   Error: Test failures   Execution halted
  • checking PDF version of manual ... [4s/5s] OK
  • DONE Status: 1 ERROR
  • using check arguments '--no-clean-on-error '