* using log directory ‘/srv/hornik/tmp/CRAN_pretest/fioRa.Rcheck’ * using R Under development (unstable) (2025-10-27 r88972) * using platform: x86_64-pc-linux-gnu * R was compiled by Debian clang version 19.1.7 (7) Debian flang-new version 19.1.7 (7) * running under: Debian GNU/Linux forky/sid * using session charset: UTF-8 * checking for file ‘fioRa/DESCRIPTION’ ... OK * this is package ‘fioRa’ version ‘0.3.3’ * package encoding: UTF-8 * checking CRAN incoming feasibility ... [4s/5s] NOTE Maintainer: ‘Jan Lisec ’ New submission Possibly misspelled words in DESCRIPTION: FIORA (2:42, 7:56) Found the following (possibly) invalid URLs: URL: https://apps.bam.de/shn01/fioRa/ From: README.md Status: Error Message: SSL peer certificate or SSH remote key was not OK [apps.bam.de]: server verification failed: certificate signer not trusted. (CAfile: /etc/ssl/certs/ca-certificates.crt CRLfile: none) * 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 ‘fioRa’ can be installed ... [2s/2s] OK * checking package directory ... OK * checking for future file timestamps ... 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 ... [0s/0s] OK * checking whether the package can be loaded with stated dependencies ... [0s/0s] OK * checking whether the package can be unloaded cleanly ... [0s/0s] OK * checking whether the namespace can be loaded with stated dependencies ... [0s/0s] OK * checking whether the namespace can be unloaded cleanly ... [0s/0s] OK * checking loading without being on the library search path ... [0s/0s] 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 ... [3s/3s] OK * checking Rd files ... [0s/0s] 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 ... [0s/0s] OK * checking LazyData ... OK * checking data for ASCII and uncompressed saves ... OK * checking examples ... [0s/0s] OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... [9s/8s] ERROR Running ‘spelling.R’ [0s/0s] Running ‘testthat.R’ [9s/7s] 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(fioRa) > > test_check("fioRa") Loading required package: shiny sh: 1: /tmp/check-CRAN-incoming-hornik/data/R/reticulate/miniconda/envs/fiora/bin/fiora-predict: not found sh: 1: /tmp/check-CRAN-incoming-hornik/data/R/reticulate/miniconda/envs/fiora/bin/fiora-predict: not found [ FAIL 7 | WARN 2 | SKIP 1 | PASS 26 ] ══ Skipped tests (1) ═══════════════════════════════════════════════════════════ • On CRAN (1): 'test-golem-recommended.R:81:5' ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-run_script.R:10:3'): fioRa `run_script` function works with default parameters ── tmp[[1]] has length 1, not length 9. ── Failure ('test-run_script.R:11:3'): fioRa `run_script` function works with default parameters ── "spec" %in% names(tmp[[1]]) is not TRUE `actual`: FALSE `expected`: TRUE ── Error ('test-run_script.R:12:3'): fioRa `run_script` function works with default parameters ── Error in `tmp[[1]][["spec"]]`: subscript out of bounds Backtrace: ▆ 1. ├─testthat::expect_true(nrow(tmp[[1]][["spec"]]) == 4) at test-run_script.R:12:3 2. │ └─testthat::quasi_label(enquo(object), label, arg = "object") 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) 4. └─base::nrow(tmp[[1]][["spec"]]) ── Failure ('test-run_script.R:23:3'): fioRa `run_script` function returns annotated spectra output ── `tmp` has length 1, not length 10. ── Failure ('test-run_script.R:24:3'): fioRa `run_script` function returns annotated spectra output ── tmp[[1]] has length 1, not length 9. ── Failure ('test-run_script.R:25:3'): fioRa `run_script` function returns annotated spectra output ── "spec" %in% names(tmp[[1]]) is not TRUE `actual`: FALSE `expected`: TRUE ── Error ('test-run_script.R:26:3'): fioRa `run_script` function returns annotated spectra output ── Error in `tmp[[1]][["spec"]]`: subscript out of bounds Backtrace: ▆ 1. ├─testthat::expect_true(nrow(tmp[[1]][["spec"]]) == 4) at test-run_script.R:26:3 2. │ └─testthat::quasi_label(enquo(object), label, arg = "object") 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) 4. └─base::nrow(tmp[[1]][["spec"]]) [ FAIL 7 | WARN 2 | SKIP 1 | PASS 26 ] Error: Test failures Execution halted * checking PDF version of manual ... [3s/3s] OK * checking HTML version of manual ... [0s/0s] OK * checking for non-standard things in the check directory ... OK * checking for detritus in the temp directory ... OK * DONE Status: 1 ERROR, 1 NOTE