• using R Under development (unstable) (2026-02-10 r89394)
• using platform: x86_64-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 13.3.1
• using session charset: UTF-8 * current time: 2026-02-15 02:15:27 UTC
• checking for file ‘survivalMPLdc/DESCRIPTION’ ... OK
• checking extension type ... Package
• this is package ‘survivalMPLdc’ version ‘0.1.1’
• 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 ‘survivalMPLdc’ can be installed ... [10s/22s] OK See the install log for details.
• checking installed package size ... OK
• 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 ... [2s/4s] OK
• checking whether the package can be loaded with stated dependencies ... [2s/3s] OK
• checking whether the package can be unloaded cleanly ... [2s/4s] OK
• checking whether the namespace can be loaded with stated dependencies ... [2s/4s] OK
• checking whether the namespace can be unloaded cleanly ... [2s/4s] OK
• checking loading without being on the library search path ... [2s/4s] 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 ... [11s/26s] OK
• checking Rd files ... [0s/1s] NOTE checkRd: (-1) coxph_mpl_dc.Rd:24: Lost braces; missing escapes or markup?     24 | \item{mpl_h0t}{MPL estimates of the baseline hazard for T, i.e. h_{0T}(x_i)}        | ^ checkRd: (-1) coxph_mpl_dc.Rd:25: Lost braces; missing escapes or markup?     25 | \item{mpl_h0c}{MPL estimates of the baseline hazard for C, i.e. h_{0C}(x_i)}        | ^ checkRd: (-1) coxph_mpl_dc.Rd:26: Lost braces; missing escapes or markup?     26 | \item{mpl_H0t}{MPL estimates of the baseline cumulative hazard for T, i.e. H_{0T}(x_i)}        | ^ checkRd: (-1) coxph_mpl_dc.Rd:27: Lost braces; missing escapes or markup?     27 | \item{mpl_H0c}{MPL estimates of the baseline cumulative hazard for C, i.e. H_{0c}(x_i)}        | ^ checkRd: (-1) coxph_mpl_dc.Rd:28: Lost braces; missing escapes or markup?     28 | \item{mpl_S0t}{MPL estimates of the baseline survival for T, i.e. S_{0T}(x_i)}        | ^ checkRd: (-1) coxph_mpl_dc.Rd:29: Lost braces; missing escapes or markup?     29 | \item{mpl_S0c}{MPL estimates of the baseline survival for C, i.e. S_{0C}(x_i)}        | ^
• 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 contents of ‘data’ directory ... OK
• checking data for non-ASCII characters ... [0s/0s] OK
• checking LazyData ... OK
• checking data for ASCII and uncompressed saves ... OK
• checking installed files from ‘inst/doc’ ... OK
• checking files in ‘vignettes’ ... OK
• checking examples ... [2s/5s] OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [22s/50s] ERROR   Running ‘testthat.R’ [22s/49s] Running the tests in ‘tests/testthat.R’ failed. Complete output:   > library(testthat)   > library(survivalMPLdc)   >   > test_check("survivalMPLdc")   Saving _problems/test_survivalMPLdc-82.R   Saving _problems/test_survivalMPLdc-87.R   [ FAIL 2 | WARN 0 | SKIP 0 | PASS 0 ]      ══ Failed tests ════════════════════════════════════════════════════════════════   ── Failure ('test_survivalMPLdc.R:79:1'): Testing the MPL estimated regression coefficients versus the true values ──   Expected `round(mpl_beta_phi_zp[, 1], 7)` to equal `c(-0.5367184, 0.1258855, 0.221752, 0.1782889)`.   Differences:   3/4 mismatches (average diff: 3e-07)   [1] -0.537 - -0.537 == 5e-07   [2] 0.126 - 0.126 == 2e-07   [4] 0.178 - 0.178 == 2e-07   ── Failure ('test_survivalMPLdc.R:84:1'): Testing the MPL estimated regression coefficients versus the true values ──   Expected `round(mpl_beta_phi_zp[, 2], 8)` to equal `c(0.16322076, 0.01784505, 0.21279377, 0.02124492)`.   Differences:   2/4 mismatches (average diff: 8.4e-07)   [1] 0.163 - 0.163 == -5.00e-08   [3] 0.213 - 0.213 == 1.63e-06      [ FAIL 2 | WARN 0 | SKIP 0 | PASS 0 ]   Error:   ! Test failures.   Execution halted
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [11m/27m] ERROR Error(s) in re-building vignettes: --- re-building ‘README.Rmd’ using rmarkdown Quitting from README.Rmd:139-155 [unnamed-chunk-8] Execution halted
• checking PDF version of manual ...* using check arguments '--no-clean-on-error '