• using R Under development (unstable) (2025-12-11 r89150)
• using platform: x86_64-pc-linux-gnu
• R was compiled by     gcc (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)     GNU Fortran (GCC) 15.1.1 20250521 (Red Hat 15.1.1-2)
• running under: Fedora Linux 42 (Workstation Edition)
• using session charset: UTF-8
• using option ‘--no-stop-on-test-error’
• checking for file ‘FastRet/DESCRIPTION’ ... OK
• this is package ‘FastRet’ version ‘1.1.4’
• 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 ‘FastRet’ can be installed ... [30s/106s] OK See the install log for details.
• 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 ... [8s/26s] OK
• checking whether the package can be loaded with stated dependencies ... [7s/19s] OK
• checking whether the package can be unloaded cleanly ... [7s/16s] OK
• checking whether the namespace can be loaded with stated dependencies ... [7s/19s] OK
• checking whether the namespace can be unloaded cleanly ... [8s/25s] OK
• checking loading without being on the library search path ... [8s/22s] OK
• checking whether startup messages can be suppressed ... [8s/26s] 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 ... [40s/120s] 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 examples ... [24s/56s] OK
• checking for unstated dependencies in ‘tests’ ... OK
• checking tests ... [66s/128s] ERROR   Running ‘testthat.R’ [66s/126s] Running the tests in ‘tests/testthat.R’ failed. Complete output:   > # This file is part of the standard setup for testthat.   > # It is recommended that you do not modify it.   > #   > # Where should you do additional test configuration?   > # Learn more about the roles of various files in:   > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview   > # * https://testthat.r-lib.org/articles/special-files.html   >   > library(testthat)   > library(FastRet)   >   > test_check("FastRet")   Starting 2 test processes.   Saving _problems/test-train_frm-gbtree-11.R   Saving _problems/test-fit_gbtree-8.R   Saving _problems/test-fit_gbtree-16.R   > test-plot_frm.R: [1;30m2025-12-11 21:29:12.84 [0m Starting training of a lasso model   > test-plot_frm.R: [1;30m2025-12-11 21:29:12.85 [0m Mocking is enabled. Returning 'mockdata/lasso_model.rds'   > test-plot_frm.R: [1;30m2025-12-11 21:29:13.13 [0m Starting training of a lasso model   > test-plot_frm.R: [1;30m2025-12-11 21:29:13.14 [0m Mocking is enabled. Returning 'mockdata/lasso_model.rds'   > test-plot_frm.R: [1;30m2025-12-11 21:29:13.15 [0m Starting model Adjustment   > test-plot_frm.R: [1;30m2025-12-11 21:29:13.15 [0m dim(original_data): 442 x 126   > test-plot_frm.R: [1;30m2025-12-11 21:29:13.16 [0m dim(new_data): 25 x 3   > test-plot_frm.R: [1;30m2025-12-11 21:29:16.40 [0m predictors: 1, 2, 3, 4, 5, 6   > test-plot_frm.R: [1;30m2025-12-11 21:29:16.40 [0m nfolds: 5   > test-plot_frm.R: [1;30m2025-12-11 21:29:16.41 [0m Preprocessing data   > test-plot_frm.R: [1;30m2025-12-11 21:29:16.43 [0m Formula: RT_ADJ ~ RT + I(RT^2) + I(RT^3) + log(RT) + exp(RT) + sqrt(RT)   > test-plot_frm.R: [1;30m2025-12-11 21:29:16.43 [0m Estimating performance of adjusted model in CV   > test-plot_frm.R: [1;30m2025-12-11 21:29:16.55 [0m Fitting adjustment model on full new data set   > test-plot_frm.R: [1;30m2025-12-11 21:29:16.55 [0m Returning adjusted frm object   > test-adjust_frm.R: [1;30m2025-12-11 21:29:17.10 [0m Starting model Adjustment   > test-adjust_frm.R: [1;30m2025-12-11 21:29:17.11 [0m dim(original_data): 442 x 126   > test-adjust_frm.R: [1;30m2025-12-11 21:29:17.11 [0m dim(new_data): 25 x 3   > test-adjust_frm.R: [1;30m2025-12-11 21:29:17.11 [0m predictors: 1, 2   > test-adjust_frm.R: [1;30m2025-12-11 21:29:17.11 [0m nfolds: 5   > test-adjust_frm.R: [1;30m2025-12-11 21:29:17.11 [0m Preprocessing data   > test-adjust_frm.R: [1;30m2025-12-11 21:29:17.16 [0m Formula: RT_ADJ ~ RT + I(RT^2)   > test-adjust_frm.R: [1;30m2025-12-11 21:29:17.17 [0m Estimating performance of adjusted model in CV   > test-adjust_frm.R: [1;30m2025-12-11 21:29:17.56 [0m Fitting adjustment model on full new data set   > test-adjust_frm.R: [1;30m2025-12-11 21:29:17.57 [0m Returning adjusted frm object   > test-adjust_frm.R: [1;30m2025-12-11 21:29:17.57 [0m Starting model Adjustment   > test-adjust_frm.R: [1;30m2025-12-11 21:29:17.57 [0m dim(original_data): 442 x 126   > test-adjust_frm.R: [1;30m2025-12-11 21:29:17.57 [0m dim(new_data): 25 x 3   > test-adjust_frm.R: [1;30m2025-12-11 21:29:17.57 [0m predictors: 1, 2, 3, 4, 5, 6   > test-adjust_frm.R: [1;30m2025-12-11 21:29:17.57 [0m nfolds: 5   > test-adjust_frm.R: [1;30m2025-12-11 21:29:17.57 [0m Preprocessing data   > test-adjust_frm.R: [1;30m2025-12-11 21:29:17.62 [0m Formula: RT_ADJ ~ RT + I(RT^2) + I(RT^3) + log(RT) + exp(RT) + sqrt(RT)   > test-adjust_frm.R: [1;30m2025-12-11 21:29:17.64 [0m Estimating performance of adjusted model in CV   > test-adjust_frm.R: [1;30m2025-12-11 21:29:17.97 [0m Fitting adjustment model on full new data set   > test-adjust_frm.R: [1;30m2025-12-11 21:29:17.98 [0m Returning adjusted frm object   > test-selective_measuring.R: [1;30m2025-12-11 21:29:18.05 [0m Starting Selective Measuring   > test-selective_measuring.R: [1;30m2025-12-11 21:29:18.05 [0m Preprocessing input data   > test-selective_measuring.R: [1;30m2025-12-11 21:29:18.05 [0m Mocking is enabled for 'preprocess_data'. Returning 'mockdata/RPCD_prepro.rds'.   > test-selective_measuring.R: [1;30m2025-12-11 21:29:18.09 [0m Standardizing features   > test-selective_measuring.R: [1;30m2025-12-11 21:29:18.15 [0m Training Ridge Regression model   > test-selective_measuring.R: [1;30m2025-12-11 21:29:18.15 [0m Fitting Ridge model   > test-selective_measuring.R: [1;30m2025-12-11 21:29:19.60 [0m End training   > test-selective_measuring.R: [1;30m2025-12-11 21:29:19.61 [0m Scaling features by coefficients of Ridge Regression model   > test-selective_measuring.R: [1;30m2025-12-11 21:29:19.64 [0m Applying PAM clustering   > test-selective_measuring.R: [1;30m2025-12-11 21:29:22.75 [0m Returning clustering results   [ FAIL 3 | WARN 5 | SKIP 0 | PASS 19 ]      ══ Failed tests ════════════════════════════════════════════════════════════════   ── Error ('test-train_frm-gbtree.R:5:5'): train_frm works if `method == "GBTree"` ──   <subscriptOutOfBoundsError/error/condition>   Error in `FUN(X[[i]], ...)`: subscript out of bounds   Backtrace:       ▆    1. └─FastRet::train_frm(...) at test-train_frm-gbtree.R:5:5    2. └─base::lapply(tmp, "[[", 2)   ── Error ('test-fit_gbtree.R:8:5'): fit.gbtrees works as expected ──────────────   Error in `begin_iteration:end_iteration`: argument of length 0   Backtrace:       ▆    1. └─FastRet:::fit_gbtree(df, verbose = 0) at test-fit_gbtree.R:8:5    2. └─FastRet:::fit_gbtree_grid(...)    3. └─xgboost::xgb.train(...)   ── Error ('test-fit_gbtree.R:16:5'): fit.gbtrees works for data from reverse phase column ──   Error in `begin_iteration:end_iteration`: argument of length 0   Backtrace:       ▆    1. └─FastRet:::fit_gbtree(df, verbose = 0) at test-fit_gbtree.R:16:5    2. └─FastRet:::fit_gbtree_grid(...)    3. └─xgboost::xgb.train(...)      [ FAIL 3 | WARN 5 | SKIP 0 | PASS 19 ]   Error:   ! Test failures.   Execution halted
• checking PDF version of manual ... [8s/22s] OK
• checking HTML version of manual ... [3s/13s] OK
• checking for non-standard things in the check directory ... OK
• checking for detritus in the temp directory ... OK
• DONE

Status: 1 ERROR