• using R version 4.6.0 (2026-04-24)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     gcc-16 (Debian 16.1.0-1) 16.1.0     GNU Fortran (Debian 16.1.0-1) 16.1.0
• running under: Debian GNU/Linux forky/sid
• using session charset: UTF-8 * current time: 2026-06-13 05:40:30 UTC
• checking for file ‘OTrecod/DESCRIPTION’ ... OK
• this is package ‘OTrecod’ version ‘0.1.2’
• 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 ‘OTrecod’ can be installed ... OK See the install log for details.
• checking package directory ... OK
• checking for future file timestamps ... 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 ... [6s/7s] OK
• checking whether the package can be loaded with stated dependencies ... [5s/6s] OK
• checking whether the package can be unloaded cleanly ... [5s/6s] OK
• checking whether the namespace can be loaded with stated dependencies ... [5s/6s] OK
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• checking loading without being on the library search path ... [7s/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 ... [34s/44s] OK
• checking Rd files ... [1s/1s] NOTE checkRd: (-1) imput_cov.Rd:79: Lost braces     79 | \item van Buuren, S., Groothuis-Oudshoorn, K. (2011). mice: Multivariate Imputation by Chained Equations in R. Journal of Statistical Software, 45(3), 1–67. url{https://www.jstatsoft.org/v45/i03/}        | ^ checkRd: (-1) indiv_grp_closest.Rd:47: Lost braces; missing escapes or markup?     47 | The function \code{indiv_grp_closest} is an intermediate function used in the implementation of an algorithm called {OUTCOME} (and its enrichment {R-OUTCOME}, see the reference (2) for more details) dedicated to the solving of recoding problems in data fusion using Optimal Transportation theory.        | ^ checkRd: (-1) indiv_grp_closest.Rd:47: Lost braces; missing escapes or markup?     47 | The function \code{indiv_grp_closest} is an intermediate function used in the implementation of an algorithm called {OUTCOME} (and its enrichment {R-OUTCOME}, see the reference (2) for more details) dedicated to the solving of recoding problems in data fusion using Optimal Transportation theory.        | ^ checkRd: (-1) merge_dbs.Rd:179: Lost braces    179 | \item van Buuren, S., Groothuis-Oudshoorn, K. (2011). mice: Multivariate Imputation by Chained Equations in R. Journal of Statistical Software, 45(3), 1–67. url{https://www.jstatsoft.org/v45/i03/}        | ^
• checking Rd metadata ... OK
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• checking for missing documentation entries ... OK
• checking for code/documentation mismatches ... OK
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• 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 ... [15s/17s] ERROR Running examples in ‘OTrecod-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: imput_cov > ### Title: imput_cov() > ### Aliases: imput_cov > > ### ** Examples > > # Imputation of all incomplete covariates in the table simu_data: > data(simu_data) > > # Here we keep the complete variable "Gender" in the imputation model. > # Using MICE (REP = 3): > imput_mice <- imput_cov(simu_data, + indcol = 4:8, R_mice = 3, + meth = c("logreg", "polyreg", "polr", "logreg", "pmm") + ) > summary(imput_mice)             Length Class Mode RAW 8 data.frame list IMPUTE 1 -none- character DATA_IMPUTE 5 data.frame list MICE_IMPS 3 mild list > > > # Using FAMD (NB_COMP = 3): > imput_famd <- imput_cov(simu_data, + indcol = 4:8, + meth = c("logreg", "polyreg", "polr", "logreg", "pmm"), + missMDA = TRUE + ) Error in svd(A) : infinite or missing values in 'x' Calls: imput_cov ... imputeMFA -> impute -> <Anonymous> -> <Anonymous> -> svd Execution halted
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [44s/74s] ERROR   Running ‘testthat.R’ [43s/74s] Running the tests in ‘tests/testthat.R’ failed. Complete output:   > library(testthat)   > library(OTrecod)   >   > test_check("OTrecod")   Saving _problems/test-imput-cov-48.R   Saving _problems/test-merge_dbs-73.R   [ FAIL 2 | WARN 1 | SKIP 0 | PASS 178 ]      ══ Failed tests ════════════════════════════════════════════════════════════════   ── Error ('test-imput-cov.R:45:3'): famd works ─────────────────────────────────   Error in `svd(A)`: infinite or missing values in 'x'   Backtrace:       ▆    1. └─OTrecod::imput_cov(...) at test-imput-cov.R:45:3    2. └─missMDA::imputeFAMD(datcov, ncp = NB_COMP, seed = seed_choice)    3. └─missMDA::imputeMFA(...)    4. └─missMDA (local) impute(...)    5. └─FactoMineR::svd.triplet(aux.base, row.w = row.w, ncp = 1)    6. └─irlba::irlba(X, nu = ncp, nv = ncp)    7. └─base::svd(A)   ── Error ('test-merge_dbs.R:68:3'): the dimensions of the output objects are validated ──   Error in `svd(A)`: infinite or missing values in 'x'   Backtrace:       ▆    1. └─OTrecod::merge_dbs(...) at test-merge_dbs.R:68:3    2. └─OTrecod::imput_cov(...)    3. └─missMDA::imputeFAMD(datcov, ncp = NB_COMP, seed = seed_choice)    4. └─missMDA::imputeMFA(...)    5. └─missMDA (local) impute(...)    6. └─FactoMineR::svd.triplet(aux.base, row.w = row.w, ncp = 1)    7. └─irlba::irlba(X, nu = ncp, nv = ncp)    8. └─base::svd(A)      [ FAIL 2 | WARN 1 | SKIP 0 | PASS 178 ]   Error:   ! Test failures.   Execution halted
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes ... OK
• checking re-building of vignette outputs ... [142s/167s] OK
• checking PDF version of manual ... [6s/10s] OK
• checking HTML version of manual ... [6s/9s] OK
• checking for non-standard things in the check directory ... OK
• DONE

Status: 2 ERRORs, 1 NOTE