• using R Under development (unstable) (2025-02-15 r87723)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     gcc (GCC) 14.2.1 20240912 (Red Hat 14.2.1-3)     GNU Fortran (GCC) 14.2.1 20240912 (Red Hat 14.2.1-3)
• running under: Fedora Linux 40 (Workstation Edition)
• using session charset: UTF-8
• using option ‘--no-stop-on-test-error’
• checking for file ‘missSBM/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘missSBM’ version ‘1.0.4’
• 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 ‘missSBM’ can be installed ... [166s/184s] OK See the install log for details.
• used C++ compiler: ‘g++ (GCC) 14.2.1 20240912 (Red Hat 14.2.1-3)’
• 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 ... 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 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 ... [23s/31s] OK
• checking Rd files ... OK
• 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 ... OK
• checking LazyData ... OK
• checking data for ASCII and uncompressed saves ... OK
• checking line endings in C/C++/Fortran sources/headers ... OK
• checking use of PKG_*FLAGS in Makefiles ... OK
• checking use of SHLIB_OPENMP_*FLAGS in Makefiles ... OK
• checking pragmas in C/C++ headers and code ... OK
• checking compilation flags used ... OK
• checking compiled code ... OK
• checking installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [31s/39s] OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [166s/172s] ERROR   Running ‘spelling.R’   Running ‘testthat.R’ [165s/171s] Running the tests in ‘tests/testthat.R’ failed. Complete output:   > library(testthat)   > library(missSBM)   >   > test_check("missSBM")       Adjusting Variational EM for Stochastic Block Model       Dyads are distributed according to a 'undirected' SBM.       Imputation assumes a 'covar-dyad' network-sampling process    iteration #: 2       Adjusting Variational EM for Stochastic Block Model       Dyads are distributed according to a 'undirected' SBM.       Imputation assumes a 'dyad' network-sampling process    iteration #: 2       Adjusting Variational EM for Stochastic Block Model       Dyads are distributed according to a 'undirected' SBM.       Imputation assumes a 'covar-node' network-sampling process    iteration #: 2       Adjusting Variational EM for Stochastic Block Model       Dyads are distributed according to a 'undirected' SBM.       Imputation assumes a 'node' network-sampling process    iteration #: 2   Tested sampling:    - dyad    - node    - double-standard    - block-node    - block-dyad       Adjusting Variational EM for Stochastic Block Model       Imputation assumes a 'dyad' network-sampling process       Initialization of 3 model(s).   Tested sampling:    - dyad    - node    - double-standard    - block-node    - block-dyadTested sampling:    - dyad    - node    - double-standard    - block-node    - block-dyad   sampling: dyad new better on connectivity   node   double-standard   block-node new better on mixture    new better on mixture    Adjusting Variational EM for Stochastic Block Model    iteration #: 2    iteration #: 3    iteration #: 4    iteration #: 5    iteration #: 6    iteration #: 7    iteration #: 8    iteration #: 9    iteration #: 10    iteration #: 11    iteration #: 12    iteration #: 13    iteration #: 14    iteration #: 15    iteration #: 16    iteration #: 17    iteration #: 18    iteration #: 19    iteration #: 20    iteration #: 21    iteration #: 22    iteration #: 23    iteration #: 24    iteration #: 25    iteration #: 26    iteration #: 27    iteration #: 28       Adjusting Variational EM for Stochastic Block Model       Dyads are distributed according to a 'undirected' SBM.       Imputation assumes a 'node' network-sampling process    iteration #: 2    iteration #: 3    iteration #: 4    iteration #: 5    iteration #: 6    iteration #: 7    iteration #: 8    iteration #: 9    iteration #: 10    iteration #: 11    iteration #: 12    iteration #: 13    iteration #: 14    iteration #: 15    iteration #: 16    iteration #: 17    iteration #: 18    iteration #: 19    iteration #: 20    iteration #: 21    iteration #: 22    iteration #: 23    iteration #: 24    iteration #: 25    iteration #: 26    iteration #: 27    iteration #: 28          Adjusting Variational EM for Stochastic Block Model       Imputation assumes a 'node' network-sampling process       Initialization of 1 model(s).    Performing VEM inference     Model with 3 blocks.                                              Adjusting Variational EM for Stochastic Block Model    iteration #: 2                                                                              [ FAIL 17 | WARN 1 | SKIP 0 | PASS 372 ]      ══ Failed tests ════════════════════════════════════════════════════════════════   ── Failure ('test-TOP-LEVEL-consistency.R:121:5'): check consistency against Tim's code for dyad sampling with covariates ──   `ARI_new` is not strictly more than `tol_ARI`. Difference: -0.5   ── Failure ('test-TOP-LEVEL-consistency.R:123:5'): check consistency against Tim's code for dyad sampling with covariates ──   `ARI_gap` is not strictly more than `tol_ARI`. Difference: -0.5   ── Failure ('test-sbm-MAR_bernoulli-with-covariates.R:23:3'): SimpleSBM_fit 'Bernoulli' model, undirected, one covariate, dyad sampling, MAR ──   rmse(mySBM$connectParam$mean, sampler_undirected_cov$connectParam$mean) is not strictly less than 0.075. Difference: 0.925   ── Failure ('test-sbm-MAR_bernoulli-with-covariates.R:24:3'): SimpleSBM_fit 'Bernoulli' model, undirected, one covariate, dyad sampling, MAR ──   ARI(mySBM$memberships, sampler_undirected_cov$memberships) is not strictly more than 0.95. Difference: -0.95   ── Failure ('test-sbm-MAR_bernoulli-with-covariates.R:41:3'): SimpleSBM_fit 'Bernoulli' model, directed, one covariate, dyad sampling, MAR ──   rmse(mySBM$connectParam$mean, sampler_directed_cov$connectParam$mean) is not strictly less than 0.075. Difference: 0.925   ── Failure ('test-sbm-MAR_bernoulli-with-covariates.R:42:3'): SimpleSBM_fit 'Bernoulli' model, directed, one covariate, dyad sampling, MAR ──   ARI(mySBM$memberships, sampler_directed_cov$memberships) is not strictly more than 0.95. Difference: -0.95   ── Failure ('test-sbm-bernoulli-with-covariates.R:29:3'): SimpleSBM_fit 'Bernoulli' model, undirected, one covariate ──   rmse(mySBM_missSBM$connectParam$mean, mySBM_sbm$connectParam$mean) is not strictly less than 0.05. Difference: 0.95   ── Failure ('test-sbm-bernoulli-with-covariates.R:30:3'): SimpleSBM_fit 'Bernoulli' model, undirected, one covariate ──   ARI(mySBM_missSBM$memberships, mySBM_sbm$memberships) is not strictly more than 0.8. Difference: -0.8   ── Failure ('test-sbm-bernoulli-with-covariates.R:31:3'): SimpleSBM_fit 'Bernoulli' model, undirected, one covariate ──   rmse(mySBM_missSBM$loglik, mySBM_sbm$loglik) is not strictly less than 0.01. Difference: 33.9   ── Failure ('test-sbm-bernoulli-with-covariates.R:34:3'): SimpleSBM_fit 'Bernoulli' model, undirected, one covariate ──   rmse(mySBM_missSBM$connectParam$mean, sampler_undirected_cov$connectParam$mean) is not strictly less than 0.1. Difference: 0.9   ── Failure ('test-sbm-bernoulli-with-covariates.R:35:3'): SimpleSBM_fit 'Bernoulli' model, undirected, one covariate ──   rmse(mySBM_missSBM$covarParam, sampler_undirected_cov$covarParam) is not strictly less than 0.1. Difference: 0.9   ── Failure ('test-sbm-bernoulli-with-covariates.R:36:3'): SimpleSBM_fit 'Bernoulli' model, undirected, one covariate ──   ARI(mySBM_missSBM$memberships, sampler_undirected_cov$memberships) is not strictly more than 0.85. Difference: -0.85   ── Failure ('test-sbm-bernoulli-with-covariates.R:58:3'): SimpleSBM_fit 'Bernoulli' model, directed, one covariate ──   rmse(mySBM_missSBM$connectParam$mean, mySBM_sbm$connectParam$mean) is not strictly less than 0.1. Difference: 0.9   ── Failure ('test-sbm-bernoulli-with-covariates.R:59:3'): SimpleSBM_fit 'Bernoulli' model, directed, one covariate ──   ARI(mySBM_missSBM$memberships, mySBM_sbm$memberships) is not strictly more than 0.8. Difference: -0.8   ── Failure ('test-sbm-bernoulli-with-covariates.R:60:3'): SimpleSBM_fit 'Bernoulli' model, directed, one covariate ──   rmse(mySBM_missSBM$loglik, mySBM_sbm$loglik) is not strictly less than 0.05. Difference: 34   ── Failure ('test-sbm-bernoulli-with-covariates.R:63:3'): SimpleSBM_fit 'Bernoulli' model, directed, one covariate ──   rmse(mySBM_missSBM$connectParam$mean, sampler_directed_cov$connectParam$mean) is not strictly less than 0.1. Difference: 0.9   ── Failure ('test-sbm-bernoulli-with-covariates.R:64:3'): SimpleSBM_fit 'Bernoulli' model, directed, one covariate ──   ARI(mySBM_missSBM$memberships, sampler_directed_cov$memberships) is not strictly more than 0.85. Difference: -0.85      [ FAIL 17 | WARN 1 | SKIP 0 | PASS 372 ]   Error: Test failures   Execution halted
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [55s/122s] OK
• checking PDF version of manual ... [12s/16s] OK
• checking HTML version of manual ... OK
• checking for non-standard things in the check directory ... OK
• checking for detritus in the temp directory ... OK
• DONE

Status: 1 ERROR