Back to Multiple platform build/check report for BioC 3.17: simplified long |
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This page was generated on 2023-02-07 11:06:45 -0500 (Tue, 07 Feb 2023).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 22.04.1 LTS) | x86_64 | R Under development (unstable) (2023-01-10 r83596) -- "Unsuffered Consequences" | 4483 |
palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2023-01-10 r83596 ucrt) -- "Unsuffered Consequences" | 4249 |
merida1 | macOS 10.14.6 Mojave | x86_64 | R Under development (unstable) (2023-01-10 r83596) -- "Unsuffered Consequences" | 4272 |
Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X |
To the developers/maintainers of the DeepBlueR package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/DeepBlueR.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 486/2164 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
DeepBlueR 1.25.1 (landing page) Felipe Albrecht
| nebbiolo1 | Linux (Ubuntu 22.04.1 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino3 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ![]() | ||||||||
merida1 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
Package: DeepBlueR |
Version: 1.25.1 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:DeepBlueR.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings DeepBlueR_1.25.1.tar.gz |
StartedAt: 2023-02-07 00:26:20 -0500 (Tue, 07 Feb 2023) |
EndedAt: 2023-02-07 00:35:49 -0500 (Tue, 07 Feb 2023) |
EllapsedTime: 568.8 seconds |
RetCode: 0 |
Status: OK |
CheckDir: DeepBlueR.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:DeepBlueR.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings DeepBlueR_1.25.1.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.17-bioc/meat/DeepBlueR.Rcheck’ * using R Under development (unstable) (2023-01-10 r83596) * using platform: x86_64-apple-darwin17.0 (64-bit) * R was compiled by Apple clang version 12.0.0 (clang-1200.0.32.29) GNU Fortran (GCC) 8.2.0 * running under: macOS Mojave 10.14.6 * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘DeepBlueR/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘DeepBlueR’ version ‘1.25.1’ * 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 hidden files and directories ... OK * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘DeepBlueR’ can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking ‘build’ 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 R files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... 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 ... OK * checking Rd files ... NOTE prepare_Rd: deepblue_enrich_regions_fast.Rd:35-38: Dropping empty section \examples * checking Rd metadata ... 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 files in ‘vignettes’ ... OK * checking examples ... OK Examples with CPU (user + system) or elapsed time > 5s user system elapsed deepblue_batch_export_results 0.513 0.047 5.634 * checking for unstated dependencies in vignettes ... OK * checking package vignettes in ‘inst/doc’ ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: 1 NOTE See ‘/Users/biocbuild/bbs-3.17-bioc/meat/DeepBlueR.Rcheck/00check.log’ for details.
DeepBlueR.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL DeepBlueR ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.3/Resources/library’ * installing *source* package ‘DeepBlueR’ ... ** using staged installation ** R ** demo ** inst ** byte-compile and prepare package for lazy loading Called method: deepblue_list_column_types Reported status was: okay Called method: deepblue_info Reported status was: okay ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (DeepBlueR)
DeepBlueR.Rcheck/DeepBlueR-Ex.timings
name | user | system | elapsed | |
deepblue_aggregate | 0.109 | 0.004 | 0.791 | |
deepblue_batch_export_results | 0.513 | 0.047 | 5.634 | |
deepblue_binning | 0.098 | 0.009 | 0.549 | |
deepblue_cache_status | 0.003 | 0.001 | 0.004 | |
deepblue_cancel_request | 0.021 | 0.001 | 0.244 | |
deepblue_chromosomes | 0.095 | 0.002 | 0.327 | |
deepblue_clear_cache | 0.002 | 0.001 | 0.002 | |
deepblue_collection_experiments_count | 0.163 | 0.002 | 0.702 | |
deepblue_commands | 0.179 | 0.010 | 0.733 | |
deepblue_count_gene_ontology_terms | 0.188 | 0.002 | 0.646 | |
deepblue_count_regions | 0.054 | 0.003 | 0.524 | |
deepblue_coverage | 0.057 | 0.007 | 0.513 | |
deepblue_delete_request_from_cache | 0.003 | 0.002 | 0.005 | |
deepblue_diff | 0.199 | 0.040 | 0.688 | |
deepblue_distinct_column_values | 0.058 | 0.007 | 0.508 | |
deepblue_download_request_data | 0.288 | 0.038 | 1.863 | |
deepblue_echo | 0.020 | 0.002 | 0.242 | |
deepblue_enrich_regions_go_terms | 0.097 | 0.011 | 0.782 | |
deepblue_enrich_regions_overlap | 1.034 | 0.087 | 4.336 | |
deepblue_export_bed | 0.315 | 0.014 | 2.180 | |
deepblue_export_meta_data | 0.511 | 0.005 | 0.897 | |
deepblue_export_tab | 0.207 | 0.005 | 1.116 | |
deepblue_extend | 0.068 | 0.001 | 0.521 | |
deepblue_extract_ids | 0.001 | 0.000 | 0.002 | |
deepblue_extract_names | 0.001 | 0.001 | 0.001 | |
deepblue_faceting_experiments | 0.046 | 0.001 | 0.505 | |
deepblue_filter_regions | 0.037 | 0.001 | 0.263 | |
deepblue_find_motif | 0.037 | 0.001 | 0.263 | |
deepblue_flank | 0.069 | 0.002 | 0.518 | |
deepblue_get_biosource_children | 0.027 | 0.002 | 0.257 | |
deepblue_get_biosource_parents | 0.023 | 0.001 | 0.269 | |
deepblue_get_biosource_related | 0.028 | 0.001 | 0.256 | |
deepblue_get_biosource_synonyms | 0.024 | 0.001 | 0.246 | |
deepblue_get_experiments_by_query | 0.023 | 0.001 | 0.248 | |
deepblue_get_regions | 0.058 | 0.001 | 0.501 | |
deepblue_get_request_data | 0.126 | 0.004 | 1.019 | |
deepblue_info | 0.052 | 0.002 | 0.280 | |
deepblue_input_regions | 0.025 | 0.001 | 0.260 | |
deepblue_intersection | 0.087 | 0.002 | 0.754 | |
deepblue_is_biosource | 0.023 | 0.001 | 0.244 | |
deepblue_liftover | 0.674 | 0.049 | 2.688 | |
deepblue_list_annotations | 0.035 | 0.002 | 0.261 | |
deepblue_list_biosources | 0.027 | 0.001 | 0.249 | |
deepblue_list_cached_requests | 0.002 | 0.001 | 0.003 | |
deepblue_list_column_types | 0.103 | 0.001 | 0.431 | |
deepblue_list_epigenetic_marks | 0.766 | 0.006 | 1.453 | |
deepblue_list_experiments | 0.258 | 0.004 | 0.738 | |
deepblue_list_expressions | 0.234 | 0.003 | 0.582 | |
deepblue_list_gene_models | 0.025 | 0.001 | 0.250 | |
deepblue_list_genes | 0.507 | 0.009 | 1.223 | |
deepblue_list_genomes | 0.025 | 0.001 | 0.255 | |
deepblue_list_in_use | 0.693 | 0.004 | 1.891 | |
deepblue_list_projects | 0.027 | 0.001 | 0.255 | |
deepblue_list_recent_experiments | 0.047 | 0.001 | 0.272 | |
deepblue_list_requests | 0.028 | 0.001 | 0.253 | |
deepblue_list_samples | 0.228 | 0.012 | 0.743 | |
deepblue_list_similar_biosources | 0.040 | 0.001 | 0.440 | |
deepblue_list_similar_epigenetic_marks | 0.037 | 0.001 | 0.272 | |
deepblue_list_similar_experiments | 0.029 | 0.001 | 0.784 | |
deepblue_list_similar_genomes | 0.024 | 0.001 | 0.254 | |
deepblue_list_similar_projects | 0.025 | 0.001 | 0.257 | |
deepblue_list_similar_techniques | 0.028 | 0.001 | 0.261 | |
deepblue_list_techniques | 0.042 | 0.002 | 0.267 | |
deepblue_merge_queries | 0.096 | 0.003 | 1.253 | |
deepblue_meta_data_to_table | 0.621 | 0.006 | 1.273 | |
deepblue_name_to_id | 0.079 | 0.002 | 0.756 | |
deepblue_overlap | 0.100 | 0.003 | 0.801 | |
deepblue_preview_experiment | 0.022 | 0.001 | 0.277 | |
deepblue_query_cache | 0.117 | 0.004 | 1.008 | |
deepblue_query_experiment_type | 0.074 | 0.002 | 0.525 | |
deepblue_reset_options | 0.000 | 0.001 | 0.001 | |
deepblue_score_matrix | 0.070 | 0.002 | 0.530 | |
deepblue_search | 0.075 | 0.002 | 0.629 | |
deepblue_select_annotations | 0.035 | 0.001 | 0.265 | |
deepblue_select_column | 0.663 | 0.004 | 1.320 | |
deepblue_select_experiments | 0.032 | 0.001 | 0.262 | |
deepblue_select_expressions | 0.040 | 0.001 | 0.365 | |
deepblue_select_genes | 0.040 | 0.001 | 0.369 | |
deepblue_select_regions | 0.045 | 0.001 | 0.277 | |
deepblue_tiling_regions | 0.031 | 0.000 | 0.254 | |