• using R Under development (unstable) (2025-02-15 r87725)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     clang version 19.1.7     flang-new version 19.1.7
• running under: Fedora Linux 40 (Workstation Edition)
• using session charset: UTF-8
• using option ‘--no-stop-on-test-error’
• checking for file ‘metafor/DESCRIPTION’ ... OK
• this is package ‘metafor’ version ‘4.8-0’
• 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 ‘metafor’ can be installed ... [150s/465s] OK See the install log for details.
• checking installed package size ... INFO   installed size is 5.4Mb   sub-directories of 1Mb or more:     R 2.2Mb     help 2.3Mb
• checking package directory ... 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 ... [3s/10s] OK
• checking whether the package can be loaded with stated dependencies ... OK
• checking whether the package can be unloaded cleanly ... OK
• checking whether the namespace can be loaded with stated dependencies ... OK
• checking whether the namespace can be unloaded cleanly ... OK
• checking loading without being on the library search path ... OK
• checking whether startup messages can be suppressed ... [3s/10s] 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 ... [6m/16m] OK
• checking Rd files ... [8s/26s] OK
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• 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 sizes of PDF files under ‘inst/doc’ ... OK
• checking installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [128s/347s] OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [225s/253s] ERROR   Running ‘testthat.R’ [224s/252s] Running the tests in ‘tests/testthat.R’ failed. Complete output:   > ### to also run skip_on_cran() tests, uncomment:   > #Sys.setenv(NOT_CRAN="true")   >   > library(testthat)   > library(metafor)   Loading required package: Matrix   Loading required package: metadat   Loading required package: numDeriv      Loading the 'metafor' package (version 4.8-0). For an   introduction to the package please type: help(metafor)      > test_check("metafor", reporter="summary")   analysis_example_berkey1995:   Checking analysis example: berkey1995: ............   analysis_example_berkey1998:   Checking analysis example: berkey1998: ..............   analysis_example_dersimonian2007:   Checking analysis example: dersimonian2007: S   analysis_example_gleser2009:   Checking analysis example: gleser2009: .......................   analysis_example_henmi2010:   Checking analysis example: henmi2010: .......   analysis_example_ishak2007:   Checking analysis example: ishak2007: .......................   analysis_example_jackson2014:   Checking analysis example: jackson2014: SS   analysis_example_konstantopoulos2011:   Checking analysis example: konstantopoulos2011: ..............................S......SSSS   analysis_example_law2016:   Checking analysis example: law2016: SS   analysis_example_lipsey2001:   Checking analysis example: lipsey2001: ..........................   analysis_example_miller1978:   Checking analysis example: miller1978: ...........S   analysis_example_morris2008:   Checking analysis example: morris2008: ..............   analysis_example_normand1999:   Checking analysis example: normand1999: ..............................   analysis_example_raudenbush1985:   Checking analysis example: raudenbush1985: ..........S.............S   analysis_example_raudenbush2009:   Checking analysis example: raudenbush2009: ..................   analysis_example_rothman2008:   Checking analysis example: rothman2008: .............................S.....................S..............S   analysis_example_stijnen2010:   Checking analysis example: stijnen2010: ............S.......SS............S......S   analysis_example_vanhouwelingen1993:   Checking analysis example: vanhouwelingen1993: SSS   analysis_example_vanhouwelingen2002:   Checking analysis example: vanhouwelingen2002: ..............S.S....S.........................   analysis_example_viechtbauer2005:   Checking analysis example: viechtbauer2005: ........   analysis_example_viechtbauer2007a:   Checking analysis example: viechtbauer2007a: .......S...SS   analysis_example_viechtbauer2007b:   Checking analysis example: viechtbauer2007b: ............S   analysis_example_yusuf1985:   Checking analysis example: yusuf1985: S.....   misc_aggregate:   Checking misc: aggregate() function: ..............   misc_anova:   Checking misc: anova() function: ..........................   misc_calc_q:   Checking misc: computation of Q-test: ..........   misc_coef_se:   Checking misc: coef() and se() functions: ................   misc_confint:   Checking misc: confint() function: .......   misc_cumul:   Checking misc: cumul() functions: .........   misc_dfround:   Checking misc: dfround() function: ..   misc_diagnostics_rma.mv:   Checking misc: model diagnostic functions for rma.mv(): SS   misc_emmprep:   Checking misc: emmprep() function: SSS   misc_escalc:   Checking misc: escalc() function: .........................................................................................................................   misc_fitstats:   Checking misc: computations of fit statistics: .......................   misc_formula:   Checking misc: formula() function: .......   misc_fsn:   Checking misc: fsn() function: .....S....S....S   misc_funnel:   Checking misc: funnel() functions: .S   misc_handling_nas:   Checking misc: handling of NAs: ......................................................................................   misc_handling_of_edge_cases_due_to_zeros:   Checking misc: handling of edge cases due to zeros: .......S.......S   misc_influence:   Checking misc: influence() and related functions: .........................   misc_list_rma:   Checking misc: head.list.rma() and tail.list.rma() functions: ....   misc_matreg:   Checking misc: matreg() function: .........   misc_metan_vs_rma.mh_with_dat.bcg:   Checking misc: rma.mh() against metan with 'dat.bcg': .....................   misc_metan_vs_rma.peto_with_dat.bcg:   Checking misc: rma.peto() against metan with 'dat.bcg': ........   misc_metan_vs_rma.uni_with_dat.bcg:   Checking misc: rma.uni() against metan with 'dat.bcg': .............................................   misc_pdfs:   Checking misc: pdfs of various measures: .....   misc_permutest:   Checking misc: permutest() function: SSSS   misc_plot_rma:   Checking misc: plot() function: .S.S.S   misc_predict:   Checking misc: predict() function: ..................................   misc_pub_bias:   Checking misc: regtest() and ranktest() functions: ............   misc_replmiss:   Checking misc: replmiss() function: ...   misc_reporter:   Checking misc: reporter() function: .S   misc_residuals:   Checking misc: residuals() function: .....................S   misc_rma_error_handling:   Checking misc: proper handling of errors in rma(): ......   misc_rma_glmm:   Checking misc: rma.glmm() function: ..........S............SSS   misc_rma_handling_nas:   Checking misc: proper handling of missing values: S   misc_rma_ls:   Checking misc: location-scale models: ...........SSSSSSSS   misc_rma_mv:   Checking misc: rma.mv() function: .....................1...   misc_rma_uni:   Checking misc: rma() function: ..............   misc_rma_uni_ls:   Checking misc: rma() function with location-scale models: ...............   misc_rma_vs_direct_computation:   Checking misc: rma.uni() against direct computations: .....   misc_rma_vs_lm:   Checking tip: rma() results match up with those from lm(): ........   misc_robust:   Checking misc: robust() function: ..........................................................................   misc_selmodel:   Checking misc: selmodel() function: .S.S.S.S.S   misc_setlab:   Checking misc: .setlab() function: .S   misc_tes:   Checking misc: tes() function: ......S   misc_to_long_table_wide:   Checking misc: to.long() function: ......................   misc_transf:   Checking misc: transformation functions: .......................   misc_update:   Checking misc: update() function: ....S   misc_vcalc:   Checking misc: vcalc() function: ......   misc_vcov:   Checking misc: vcov() function: ........   misc_vec2mat:   Checking misc: vec2mat() function: ....   misc_vif:   Checking misc: vif() function: ...   misc_weights:   Checking misc: weights() function: ..........................   plots_baujat_plot:   Checking plots example: Baujat plot: .S   plots_caterpillar_plot:   Checking plots example: caterpillar plot: .S   plots_contour-enhanced_funnel_plot:   Checking plots example: contour-enhanced funnel plot: .S   plots_cumulative_forest_plot:   Checking plots example: cumulative forest plot: .S.S.S   plots_forest_plot_with_predstyle:   Checking plots example: forest plot with adjusted predstyle: .S.S.S.S.S   plots_forest_plot_with_subgroups:   Checking plots example: forest plot with subgroups: .S   plots_funnel_plot_variations:   Checking plots example: funnel plot variations: .S   plots_funnel_plot_with_trim_and_fill:   Checking plots example: funnel plot with trim and fill: .S   plots_gosh:   Checking plots example: GOSH plot: .S   plots_labbe_plot:   Checking plots example: L'Abbe plot: .S   plots_llplot:   Checking plots example: likelihood plot: .S   plots_meta-analytic_scatterplot:   Checking plots example: meta-analytic scatterplot: .S   plots_normal_qq_plots:   Checking plots example: normal QQ plots: .S.S.S.   plots_plot_of_cumulative_results:   Checking plots example: plot of cumulative results: .S   plots_plot_of_influence_diagnostics:   Checking plots example: plot of influence diagnostics: .S   plots_radial_plot:   Checking plots example: radial (Galbraith) plot: .S   plots_regplot:   Checking plots example: scatter/bubble plot: .S   tips_model_selection_with_glmulti_and_mumin:   Checking tip: model selection using the glmulti and MuMIn packages: SS   tips_multiple_imputation_with_mice:   Checking tip: multiple imputation with the mice and metafor packages: SS   tips_regression_with_rma:   Checking tip: rma() results match up with those from lm(): ...........   tips_rma_vs_lm_and_lme:   Checking tip: rma() results match up with those from lm() and lme(): ..........   tips_testing_factors_lincoms:   Checking tip: testing factors and linear combinations of parameters: ............................      ══ Skipped ═════════════════════════════════════════════════════════════════════   1. results are correct for the CLASP example. ('test_analysis_example_dersimonian2007.r:17:4') - Reason: On CRAN      2. confint() gives correct results for example 1 in Jackson et al. (2014). ('test_analysis_example_jackson2014.r:9:4') - Reason: On CRAN      3. confint() gives correct results for example 2 in Jackson et al. (2014). ('test_analysis_example_jackson2014.r:49:4') - Reason: On CRAN      4. profiling works for the three-level random-effects model (multilevel parameterization). ('test_analysis_example_konstantopoulos2011.r:119:4') - Reason: On CRAN      5. profiling works for the three-level random-effects model (multivariate parameterization). ('test_analysis_example_konstantopoulos2011.r:166:4') - Reason: On CRAN      6. BLUPs are calculated correctly for the three-level random-effects model (multilevel parameterization). ('test_analysis_example_konstantopoulos2011.r:195:4') - Reason: On CRAN      7. restarting with 'restart=TRUE' works. ('test_analysis_example_konstantopoulos2011.r:211:4') - Reason: On CRAN      8. results are correct when allowing for different tau^2 per district. ('test_analysis_example_konstantopoulos2011.r:225:4') - Reason: On CRAN      9. results are correct for example 1. ('test_analysis_example_law2016.r:9:4') - Reason: On CRAN      10. results are correct for example 2. ('test_analysis_example_law2016.r:86:4') - Reason: On CRAN      11. back-transformations work as intended for individual studies and the model estimate. ('test_analysis_example_miller1978.r:80:4') - Reason: On CRAN      12. results are correct for the random-effects model. ('test_analysis_example_raudenbush1985.r:40:4') - Reason: On CRAN      13. results are correct for the mixed-effects model. ('test_analysis_example_raudenbush1985.r:102:4') - Reason: On CRAN      14. results are correct for Mantel-Haenszel method. ('test_analysis_example_rothman2008.r:133:4') - Reason: On CRAN      15. results are correct for Mantel-Haenszel method. ('test_analysis_example_rothman2008.r:269:4') - Reason: On CRAN      16. results are correct for Mantel-Haenszel method. ('test_analysis_example_rothman2008.r:363:4') - Reason: On CRAN      17. results for the binomial-normal normal are correct (measure=='PLO') ('test_analysis_example_stijnen2010.r:40:4') - Reason: On CRAN      18. results for the conditional logistic model with exact likelihood are correct (measure=='OR') ('test_analysis_example_stijnen2010.r:83:4') - Reason: On CRAN      19. results for the conditional logistic model with approximate likelihood are correct (measure=='OR') ('test_analysis_example_stijnen2010.r:101:4') - Reason: On CRAN      20. results for the Poisson-normal model are correct (measure=='IRLN') ('test_analysis_example_stijnen2010.r:153:4') - Reason: On CRAN      21. results for the Poisson-normal model are correct (measure=='IRR') ('test_analysis_example_stijnen2010.r:196:4') - Reason: On CRAN      22. the log likelihood plot can be created. ('test_analysis_example_vanhouwelingen1993.r:14:4') - Reason: On CRAN      23. results of the equal-effects conditional logistic model are correct. ('test_analysis_example_vanhouwelingen1993.r:38:4') - Reason: On CRAN      24. results of the random-effects conditional logistic model are correct. ('test_analysis_example_vanhouwelingen1993.r:63:4') - Reason: On CRAN      25. profile plot for tau^2 can be drawn. ('test_analysis_example_vanhouwelingen2002.r:65:4') - Reason: On CRAN      26. forest plot of observed log(OR)s and corresponding BLUPs can be drawn. ('test_analysis_example_vanhouwelingen2002.r:82:4') - Reason: On CRAN      27. L'Abbe plot can be drawn. ('test_analysis_example_vanhouwelingen2002.r:136:4') - Reason: On CRAN      28. CI is correct for the profile likelihood method. ('test_analysis_example_viechtbauer2007a.r:79:4') - Reason: On CRAN      29. CI is correct for the parametric bootstrap method. ('test_analysis_example_viechtbauer2007a.r:121:4') - Reason: On CRAN      30. CI is correct for the non-parametric bootstrap method. ('test_analysis_example_viechtbauer2007a.r:159:4') - Reason: On CRAN      31. results are correct for the mixed-effects model. ('test_analysis_example_viechtbauer2007b.r:74:4') - Reason: On CRAN      32. log likelihood plot can be drawn. ('test_analysis_example_yusuf1985.r:15:4') - Reason: On CRAN      33. model diagnostic functions work with 'na.omit'. ('test_misc_diagnostics_rma.mv.r:29:4') - Reason: On CRAN      34. model diagnostic functions work with 'na.pass'. ('test_misc_diagnostics_rma.mv.r:160:4') - Reason: On CRAN      35. emmprep() gives correct results for an intercept-only model. ('test_misc_emmprep.r:16:4') - Reason: On CRAN      36. emmprep() gives correct results for a meta-regression model. ('test_misc_emmprep.r:36:4') - Reason: On CRAN      37. emmprep() gives correct results for the r-to-z transformation. ('test_misc_emmprep.r:63:4') - Reason: On CRAN      38. confint() gives correct results for the 'expectancy data' in Becker (2005). ('test_misc_fsn.r:33:4') - Reason: On CRAN      39. confint() gives correct results for the 'passive smoking data' in Becker (2005). ('test_misc_fsn.r:65:4') - Reason: On CRAN      40. confint() gives correct results for the 'interview data' in Becker (2005). ('test_misc_fsn.r:93:4') - Reason: On CRAN      41. funnel() works correctly. ('test_misc_funnel.r:11:4') - Reason: On CRAN      42. rma.peto(), rma.mh(), and rma.glmm() handle outcome1 never occurring properly. ('test_misc_handling_of_edge_cases_due_to_zeros.r:23:4') - Reason: On CRAN      43. rma.peto(), rma.mh(), and rma.glmm() handle outcome2 never occurring properly. ('test_misc_handling_of_edge_cases_due_to_zeros.r:45:4') - Reason: On CRAN      44. permutest() gives correct results for a random-effects model. ('test_misc_permutest.r:15:4') - Reason: On CRAN      45. permutest() gives correct results for a mixed-effects model. ('test_misc_permutest.r:44:4') - Reason: On CRAN      46. permutest() gives correct results for example in Follmann & Proschan (1999). ('test_misc_permutest.r:68:4') - Reason: On CRAN      47. permutest() works correctly when specifying the 'btt' argument. ('test_misc_permutest.r:95:4') - Reason: On CRAN      48. plot can be drawn for rma(). ('test_misc_plot_rma.r:11:4') - Reason: On CRAN      49. plot can be drawn for rma.mh(). ('test_misc_plot_rma.r:52:4') - Reason: On CRAN      50. plot can be drawn for rma.peto(). ('test_misc_plot_rma.r:76:4') - Reason: On CRAN      51. reporter() works correctly for 'rma.uni' objects. ('test_misc_reporter.r:12:4') - Reason: On CRAN      52. residuals are correct for rma.glmm(). ('test_misc_residuals.r:81:4') - Reason: On CRAN      53. rma.glmm() works correctly for 'UM.FS' model. ('test_misc_rma_glmm.r:30:4') - Reason: On CRAN      54. rma.glmm() works correctly for 'UM.RS' model. ('test_misc_rma_glmm.r:69:4') - Reason: On CRAN      55. rma.glmm() works correctly when using 'clogit' or 'clogistic'. ('test_misc_rma_glmm.r:89:4') - Reason: On CRAN      56. rma.glmm() works correctly for 'CM.EL' model. ('test_misc_rma_glmm.r:107:4') - Reason: On CRAN      57. rma.glmm() handles NAs correctly. ('test_misc_rma_handling_nas.r:9:4') - Reason: On CRAN      58. location-scale model works correctly for two subgroups with different tau^2 values ('test_misc_rma_ls.r:38:4') - Reason: On CRAN      59. profile() and confint() work correctly for location-scale models ('test_misc_rma_ls.r:49:4') - Reason: On CRAN      60. location-scale model works correctly for a continuous predictor ('test_misc_rma_ls.r:92:4') - Reason: On CRAN      61. location-scale model works correctly for multiple predictors ('test_misc_rma_ls.r:155:4') - Reason: On CRAN      62. permutation tests work correctly for a location-scale model ('test_misc_rma_ls.r:200:4') - Reason: On CRAN      63. predict() works correctly for location-scale models ('test_misc_rma_ls.r:230:4') - Reason: On CRAN      64. anova() works correctly for location-scale models ('test_misc_rma_ls.r:281:4') - Reason: On CRAN      65. vif() works correctly for location-scale models ('test_misc_rma_ls.r:322:4') - Reason: On CRAN      66. results are correct for a step function model. ('test_misc_selmodel.r:11:4') - Reason: On CRAN      67. results are correct for the beta function model. ('test_misc_selmodel.r:63:4') - Reason: On CRAN      68. results are correct for the various exponential function models. ('test_misc_selmodel.r:120:4') - Reason: On CRAN      69. results are correct for a pirori chosen step function models. ('test_misc_selmodel.r:178:4') - Reason: On CRAN      70. results are correct for a truncated distribution model. ('test_misc_selmodel.r:202:4') - Reason: On CRAN      71. .setlab() works correctly together with forest(). ('test_misc_setlab.r:14:4') - Reason: On CRAN      72. tes() works correctly for 'dat.dorn2007'. ('test_misc_tes.r:25:4') - Reason: On CRAN      73. update() works for rma.glmm(). ('test_misc_update.r:45:4') - Reason: On CRAN      74. plot can be drawn. ('test_plots_baujat_plot.r:13:4') - Reason: On CRAN      75. plot can be drawn. ('test_plots_caterpillar_plot.r:13:4') - Reason: On CRAN      76. plot can be drawn. ('test_plots_contour-enhanced_funnel_plot.r:13:4') - Reason: On CRAN      77. plot can be drawn for 'rma.uni' object. ('test_plots_cumulative_forest_plot.r:13:4') - Reason: On CRAN      78. plot can be drawn for 'rma.mh' object. ('test_plots_cumulative_forest_plot.r:43:4') - Reason: On CRAN      79. plot can be drawn for 'rma.peto' object. ('test_plots_cumulative_forest_plot.r:70:4') - Reason: On CRAN      80. plot can be drawn with predstyle='l'. ('test_plots_forest_plot_with_predstyle.r:17:4') - Reason: On CRAN      81. plot can be drawn with predstyle='b'. ('test_plots_forest_plot_with_predstyle.r:79:4') - Reason: On CRAN      82. plot can be drawn with predstyle='s'. ('test_plots_forest_plot_with_predstyle.r:141:4') - Reason: On CRAN      83. plot can be drawn with predstyle='d'. ('test_plots_forest_plot_with_predstyle.r:203:4') - Reason: On CRAN      84. plot can be drawn with predstyle='d' and transf=exp. ('test_plots_forest_plot_with_predstyle.r:265:4') - Reason: On CRAN      85. plot can be drawn. ('test_plots_forest_plot_with_subgroups.r:13:4') - Reason: On CRAN      86. plot can be drawn. ('test_plots_funnel_plot_variations.r:13:4') - Reason: On CRAN      87. plot can be drawn. ('test_plots_funnel_plot_with_trim_and_fill.r:13:4') - Reason: On CRAN      88. plot can be drawn. ('test_plots_gosh.r:13:4') - Reason: On CRAN      89. plot can be drawn. ('test_plots_labbe_plot.r:13:4') - Reason: On CRAN      90. plot can be drawn. ('test_plots_llplot.r:11:4') - Reason: On CRAN      91. plot can be drawn. ('test_plots_meta-analytic_scatterplot.r:13:4') - Reason: On CRAN      92. plot can be drawn for 'rma.uni' object. ('test_plots_normal_qq_plots.r:13:4') - Reason: On CRAN      93. plot can be drawn for 'rma.mh' object. ('test_plots_normal_qq_plots.r:54:4') - Reason: On CRAN      94. plot can be drawn for 'rma.peto' object. ('test_plots_normal_qq_plots.r:72:4') - Reason: On CRAN      95. plot can be drawn. ('test_plots_plot_of_cumulative_results.r:13:4') - Reason: On CRAN      96. plot can be drawn. ('test_plots_plot_of_influence_diagnostics.r:13:4') - Reason: On CRAN      97. plot can be drawn. ('test_plots_radial_plot.r:13:4') - Reason: On CRAN      98. plot can be drawn. ('test_plots_regplot.r:13:4') - Reason: On CRAN      99. results are correct for package glmulti. ('test_tips_model_selection_with_glmulti_and_mumin.r:16:4') - Reason: On CRAN      100. results are correct for package MuMIn. ('test_tips_model_selection_with_glmulti_and_mumin.r:89:4') - Reason: On CRAN      101. results are correct for package mice. ('test_tips_multiple_imputation_with_mice.r:16:4') - Reason: On CRAN      102. results are correct for package Amelia. ('test_tips_multiple_imputation_with_mice.r:59:4') - Reason: On CRAN      ══ Failed ══════════════════════════════════════════════════════════════════════   ── 1. Error ('test_misc_rma_mv.r:108:4'): rma.mv() works correctly with differen   Error: Optimizer (nloptr::nloptr) did not achieve convergence (status = -2).   Backtrace:       ▆    1. └─metafor::rma.mv(...) at test_misc_rma_mv.r:108:4    2. └─metafor:::.chkconv(...)      ══ DONE ════════════════════════════════════════════════════════════════════════   Error: Test failures   Execution halted
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... OK
• checking PDF version of manual ... [27s/27s] OK
• checking HTML version of manual ... [17s/17s] OK
• checking for non-standard things in the check directory ... OK
• checking for detritus in the temp directory ... OK
• DONE

Status: 1 ERROR