CRAN Package Check Results for Maintainer ‘Quentin Giai Gianetto <quentin.giaigianetto at pasteur.fr>’

Last updated on 2026-04-17 18:52:01 CEST.

Package	ERROR	OK
diagFDR	3	9

Package diagFDR

Current CRAN status: ERROR: 3, OK: 9

Version: 0.1.0
Check: examples
Result: ERROR Running examples in ‘diagFDR-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: dfdr_render_report > ### Title: Render a human-readable HTML report from 'dfdr_run_all' output > ### Aliases: dfdr_render_report > > ### ** Examples > > # A minimal example that renders a report from a toy dataset. > # This example is conditional because rmarkdown is in Suggests. > if (requireNamespace("rmarkdown", quietly = TRUE)) { + library(tibble) + tmpdir <- tempdir() + + set.seed(1) + n <- 3000 + df <- tibble( + id = as.character(seq_len(n)), + run = "run1", + is_decoy = sample(c(FALSE, TRUE), n, replace = TRUE, prob = c(0.95, 0.05)), + score = rnorm(n), + q = pmin(1, rank(-score) / n), + pep = NA_real_ + ) + x <- as_dfdr_tbl(df, unit = "psm", scope = "global", q_source = "toy") + + diag <- dfdr_run_all( + xs = list(toy = x), + alpha_main = 0.01, + compute_pseudo_pvalues = FALSE + ) + + # Render to a temporary directory (does not open a browser during checks) + dfdr_render_report(diag, out_dir = tmpdir, open = FALSE) + } Warning in file(con, "w") : cannot open file 'dfdr_report.knit.md': Read-only file system Error in file(con, "w") : cannot open the connection Calls: dfdr_render_report ... <Anonymous> -> <Anonymous> -> write_utf8 -> writeLines -> file Execution halted Examples with CPU (user + system) or elapsed time > 5s user system elapsed dfdr_plot_cv 0.644 0.012 7.288 dfdr_bh_elasticity 0.064 0.016 11.064 Flavor: r-devel-linux-x86_64-debian-clang

Version: 0.1.0
Check: examples
Result: ERROR Running examples in ‘diagFDR-Ex.R’ failed The error most likely occurred in: > base::assign(".ptime", proc.time(), pos = "CheckExEnv") > ### Name: dfdr_render_report > ### Title: Render a human-readable HTML report from 'dfdr_run_all' output > ### Aliases: dfdr_render_report > > ### ** Examples > > # A minimal example that renders a report from a toy dataset. > # This example is conditional because rmarkdown is in Suggests. > if (requireNamespace("rmarkdown", quietly = TRUE)) { + library(tibble) + tmpdir <- tempdir() + + set.seed(1) + n <- 3000 + df <- tibble( + id = as.character(seq_len(n)), + run = "run1", + is_decoy = sample(c(FALSE, TRUE), n, replace = TRUE, prob = c(0.95, 0.05)), + score = rnorm(n), + q = pmin(1, rank(-score) / n), + pep = NA_real_ + ) + x <- as_dfdr_tbl(df, unit = "psm", scope = "global", q_source = "toy") + + diag <- dfdr_run_all( + xs = list(toy = x), + alpha_main = 0.01, + compute_pseudo_pvalues = FALSE + ) + + # Render to a temporary directory (does not open a browser during checks) + dfdr_render_report(diag, out_dir = tmpdir, open = FALSE) + } Warning in file(con, "w") : cannot open file 'dfdr_report.knit.md': Read-only file system Error in file(con, "w") : cannot open the connection Calls: dfdr_render_report ... <Anonymous> -> <Anonymous> -> write_utf8 -> writeLines -> file Execution halted Flavors: r-devel-linux-x86_64-debian-gcc, r-patched-linux-x86_64