CRAN Package Check Results for Package XYomics

Last updated on 2026-04-08 06:51:17 CEST.

Flavor	Version	Tinstall	Tcheck	Ttotal	Status	Flags
r-devel-linux-x86_64-debian-clang	0.1.3	59.24	826.40	885.64	OK
r-devel-linux-x86_64-debian-gcc	0.1.3	50.34	507.21	557.55	OK
r-devel-linux-x86_64-fedora-clang	0.1.3	112.00	1410.45	1522.45	OK
r-devel-linux-x86_64-fedora-gcc	0.1.3	122.00	1440.33	1562.33	OK
r-devel-macos-arm64	0.1.3	16.00	207.00	223.00	ERROR
r-devel-windows-x86_64	0.1.3	114.00	806.00	920.00	OK
r-patched-linux-x86_64	0.1.3	62.52	765.00	827.52	OK
r-release-linux-x86_64	0.1.3	65.42	536.02	601.44	OK
r-release-macos-arm64	0.1.3	16.00	173.00	189.00	OK
r-release-macos-x86_64	0.1.3	47.00	466.00	513.00	OK
r-release-windows-x86_64	0.1.3	89.00	511.00	600.00	OK
r-oldrel-macos-arm64	0.1.3	7.00	17.00	24.00	ERROR
r-oldrel-macos-x86_64	0.1.3	47.00	626.00	673.00	NOTE
r-oldrel-windows-x86_64	0.1.3	109.00	711.00	820.00	OK

Check Details

Version: 0.1.3
Check: re-building of vignette outputs
Result: ERROR Error(s) in re-building vignettes: --- re-building ‘XYomics_bulk_example.Rmd’ using rmarkdown Quitting from XYomics_bulk_example.Rmd:206-240 [pathway-analysis] ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ <error/rlang_error> Error in `get()`: ! invalid 'envir' argument --- Backtrace: ▆ 1. └─XYomics::improved_pathway_enrichment(...) 2. └─clusterProfiler::enrichGO(...) 3. └─clusterProfiler:::add_GO_Ontology(res, GO_DATA) 4. └─base::get("GO2ONT", envir = GO_DATA) ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Error: processing vignette 'XYomics_bulk_example.Rmd' failed with diagnostics: invalid 'envir' argument --- failed re-building ‘XYomics_bulk_example.Rmd’ --- re-building ‘XYomics_sc_example.Rmd’ using rmarkdown Performing log-normalization 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Performing log-normalization 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Performing log-normalization 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Performing log-normalization 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Performing log-normalization 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Performing log-normalization 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Performing log-normalization 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Performing log-normalization 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Performing log-normalization 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Performing log-normalization 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Calculating gene variances 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Calculating feature variances of standardized and clipped values 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Calculating gene variances 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Calculating feature variances of standardized and clipped values 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Calculating gene variances 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Calculating feature variances of standardized and clipped values 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Calculating gene variances 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Calculating feature variances of standardized and clipped values 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Calculating gene variances 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Calculating feature variances of standardized and clipped values 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Calculating gene variances 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Calculating feature variances of standardized and clipped values 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Calculating gene variances 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Calculating feature variances of standardized and clipped values 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Calculating gene variances 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Calculating feature variances of standardized and clipped values 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Calculating gene variances 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Calculating feature variances of standardized and clipped values 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Calculating gene variances 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Calculating feature variances of standardized and clipped values 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| | | | 0% | |======================================================================| 100% 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| Using method 'umap' 0% 10 20 30 40 50 60 70 80 90 100% [----|----|----|----|----|----|----|----|----|----| **************************************************| --- finished re-building ‘XYomics_sc_example.Rmd’ SUMMARY: processing the following file failed: ‘XYomics_bulk_example.Rmd’ Error: Vignette re-building failed. Execution halted Flavor: r-devel-macos-arm64

Version: 0.1.3
Check: whether package can be installed
Result: ERROR Installation failed. Flavor: r-oldrel-macos-arm64

Version: 0.1.3
Check: installed package size
Result: NOTE installed size is 5.4Mb sub-directories of 1Mb or more: doc 2.1Mb libs 2.2Mb Flavor: r-oldrel-macos-x86_64