CRAN Package Check Results for Package PopPsiSeqR

Last updated on 2026-01-19 11:49:07 CET.

Flavor	Version	Tinstall	Tcheck	Ttotal	Status	Flags
r-devel-linux-x86_64-debian-clang	1.0.2	9.60	178.73	188.33	OK
r-devel-linux-x86_64-debian-gcc	1.0.2	5.70	126.09	131.79	OK
r-devel-linux-x86_64-fedora-clang	1.0.2	17.00	299.49	316.49	OK
r-devel-windows-x86_64	1.0.2	17.00	235.00	252.00	OK
r-patched-linux-x86_64	1.0.2	9.03	166.67	175.70	OK
r-release-linux-x86_64	1.0.2	8.84	165.91	174.75	OK
r-release-macos-arm64	1.0.2			4.00	ERROR
r-release-macos-x86_64	1.0.2			12.00	ERROR
r-release-windows-x86_64	1.0.2	13.00	216.00	229.00	OK
r-oldrel-macos-arm64	1.0.2	2.00	49.00	51.00	ERROR
r-oldrel-macos-x86_64	1.0.2	6.00	202.00	208.00	ERROR
r-oldrel-windows-x86_64	1.0.2	16.00	189.00	205.00	ERROR

Check Details

Version: 1.0.2
Check: package dependencies
Result: ERROR Package required but not available: ‘ggbio’ See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’ manual. Flavors: r-release-macos-arm64, r-release-macos-x86_64

Version: 1.0.2
Check: tests
Result: ERROR Running ‘testthat.R’ [7s/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(PopPsiSeqR) > > test_check("PopPsiSeqR") Saving _problems/test-plot-26.R Saving _problems/test-plot-27.R [ FAIL 2 | WARN 3 | SKIP 0 | PASS 11 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-plot.R:26:5'): returns a plot ──────────────────────────────── Expected `mock.plot <- windowedFrequencyShift.plotter(mock_data)` not to throw any errors. Actually got a <simpleError> with message: invalid class "GGbio" object: invalid object for slot "ggplot" in class "GGbio": got class "ggplot2::ggplot", should be or extend class "gg_OR_NULL" ── Error ('test-plot.R:27:5'): returns a plot ────────────────────────────────── Error in `eval(code, test_env)`: object 'mock.plot' not found Backtrace: ▆ 1. ├─testthat::expect_true(ggplot2::is.ggplot(mock.plot@ggplot)) at test-plot.R:27:5 2. │ └─testthat::quasi_label(enquo(object), label) 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) 4. └─ggplot2::is.ggplot(mock.plot@ggplot) 5. └─ggplot2::is_ggplot(x) 6. └─S7::S7_inherits(x, class_ggplot) [ FAIL 2 | WARN 3 | SKIP 0 | PASS 11 ] Error: ! Test failures. Execution halted Flavor: r-oldrel-macos-arm64

Version: 1.0.2
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: --- re-building ‘PopPsiSeq_and_Helpers.Rmd’ using rmarkdown Quitting from PopPsiSeq_and_Helpers.Rmd:120-124 [unnamed-chunk-7] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `validObject()`: ! invalid class "GGbio" object: invalid object for slot "ggplot" in class "GGbio": got class "ggplot2::ggplot", should be or extend class "gg_OR_NULL" --- Backtrace: x 1. +-ggplot2::autoplot(...) 2. \-ggbio::autoplot(...) 3. \-ggbio (local) .local(object, ...) 4. +-BiocGenerics::do.call(ggplot, c(list(data = object), list(aes.res))) 5. +-base::do.call(ggplot, c(list(data = object), list(aes.res))) 6. +-ggplot2 (local) `<fn>`(data = `<GRanges>`, `<ggplt2::>`) 7. \-ggbio:::ggplot.Vector(data = `<GRanges>`, `<ggplt2::>`) 8. \-ggbio::GGbio(gg, data = data) 9. +-BiocGenerics::do.call(...) 10. +-base::do.call(...) 11. \-methods (local) `<fn>`(...) 12. +-methods::initialize(value, ...) 13. \-methods::initialize(value, ...) 14. \-methods::validObject(.Object) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'PopPsiSeq_and_Helpers.Rmd' failed with diagnostics: invalid class "GGbio" object: invalid object for slot "ggplot" in class "GGbio": got class "ggplot2::ggplot", should be or extend class "gg_OR_NULL" --- failed re-building ‘PopPsiSeq_and_Helpers.Rmd’ SUMMARY: processing the following file failed: ‘PopPsiSeq_and_Helpers.Rmd’ Error: Vignette re-building failed. Execution halted Flavors: r-oldrel-macos-arm64, r-oldrel-macos-x86_64, r-oldrel-windows-x86_64

Version: 1.0.2
Check: tests
Result: ERROR Running ‘testthat.R’ [18s/33s] 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(PopPsiSeqR) > > test_check("PopPsiSeqR") Saving _problems/test-plot-26.R Saving _problems/test-plot-27.R [ FAIL 2 | WARN 3 | SKIP 0 | PASS 11 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-plot.R:26:5'): returns a plot ──────────────────────────────── Expected `mock.plot <- windowedFrequencyShift.plotter(mock_data)` not to throw any errors. Actually got a <simpleError> with message: invalid class "GGbio" object: invalid object for slot "ggplot" in class "GGbio": got class "ggplot2::ggplot", should be or extend class "gg_OR_NULL" ── Error ('test-plot.R:27:5'): returns a plot ────────────────────────────────── Error in `eval(code, test_env)`: object 'mock.plot' not found Backtrace: ▆ 1. ├─testthat::expect_true(ggplot2::is.ggplot(mock.plot@ggplot)) at test-plot.R:27:5 2. │ └─testthat::quasi_label(enquo(object), label) 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) 4. └─ggplot2::is.ggplot(mock.plot@ggplot) 5. └─ggplot2::is_ggplot(x) 6. └─S7::S7_inherits(x, class_ggplot) [ FAIL 2 | WARN 3 | SKIP 0 | PASS 11 ] Error: ! Test failures. Execution halted Flavor: r-oldrel-macos-x86_64

Version: 1.0.2
Check: tests
Result: ERROR Running 'testthat.R' [32s] 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(PopPsiSeqR) > > test_check("PopPsiSeqR") Saving _problems/test-plot-26.R Saving _problems/test-plot-27.R [ FAIL 2 | WARN 3 | SKIP 0 | PASS 11 ] ══ Failed tests ════════════════════════════════════════════════════════════════ ── Failure ('test-plot.R:26:5'): returns a plot ──────────────────────────────── Expected `mock.plot <- windowedFrequencyShift.plotter(mock_data)` not to throw any errors. Actually got a <simpleError> with message: invalid class "GGbio" object: invalid object for slot "ggplot" in class "GGbio": got class "ggplot2::ggplot", should be or extend class "gg_OR_NULL" ── Error ('test-plot.R:27:5'): returns a plot ────────────────────────────────── Error in `eval(code, test_env)`: object 'mock.plot' not found Backtrace: ▆ 1. ├─testthat::expect_true(ggplot2::is.ggplot(mock.plot@ggplot)) at test-plot.R:27:5 2. │ └─testthat::quasi_label(enquo(object), label) 3. │ └─rlang::eval_bare(expr, quo_get_env(quo)) 4. └─ggplot2::is.ggplot(mock.plot@ggplot) 5. └─ggplot2::is_ggplot(x) 6. └─S7::S7_inherits(x, class_ggplot) [ FAIL 2 | WARN 3 | SKIP 0 | PASS 11 ] Error: ! Test failures. Execution halted Flavor: r-oldrel-windows-x86_64