Back to Build/check report for BioC 3.17 |
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This page was generated on 2023-01-02 09:00:51 -0500 (Mon, 02 Jan 2023).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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palomino5 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2022-12-25 r83502 ucrt) -- "Unsuffered Consequences" | 4165 |
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 simplifyEnrichment package: Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 1865/2158 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
simplifyEnrichment 1.9.0 (landing page) Zuguang Gu
| palomino5 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ||||||||
Package: simplifyEnrichment |
Version: 1.9.0 |
Command: F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:simplifyEnrichment.install-out.txt --library=F:\biocbuild\bbs-3.17-bioc\R\library --no-vignettes --timings simplifyEnrichment_1.9.0.tar.gz |
StartedAt: 2022-12-29 03:38:02 -0500 (Thu, 29 Dec 2022) |
EndedAt: 2022-12-29 03:40:19 -0500 (Thu, 29 Dec 2022) |
EllapsedTime: 136.9 seconds |
RetCode: 0 |
Status: OK |
CheckDir: simplifyEnrichment.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:simplifyEnrichment.install-out.txt --library=F:\biocbuild\bbs-3.17-bioc\R\library --no-vignettes --timings simplifyEnrichment_1.9.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'F:/biocbuild/bbs-3.17-bioc-rtools43/meat/simplifyEnrichment.Rcheck' * using R Under development (unstable) (2022-12-25 r83502 ucrt) * using platform: x86_64-w64-mingw32 (64-bit) * R was compiled by gcc.exe (GCC) 10.4.0 GNU Fortran (GCC) 10.4.0 * running under: Windows Server x64 (build 20348) * using session charset: UTF-8 * using option '--no-vignettes' * checking for file 'simplifyEnrichment/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'simplifyEnrichment' version '1.9.0' * 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 whether package 'simplifyEnrichment' can be installed ... OK * checking installed package size ... NOTE installed size is 6.5Mb sub-directories of 1Mb or more: extdata 5.9Mb * 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 ... NOTE Unexported object imported by a ':::' call: 'clusterProfiler:::get_GO_data' See the note in ?`:::` about the use of this operator. * 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 ... OK * 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 * checking for unstated dependencies in 'tests' ... OK * checking tests ... Running 'test-all.R' OK * 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: 2 NOTEs See 'F:/biocbuild/bbs-3.17-bioc-rtools43/meat/simplifyEnrichment.Rcheck/00check.log' for details.
simplifyEnrichment.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.17-bioc\R\bin\R.exe CMD INSTALL simplifyEnrichment ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.17-bioc/R/library' * installing *source* package 'simplifyEnrichment' ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** 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 (simplifyEnrichment)
simplifyEnrichment.Rcheck/tests/test-all.Rout
R Under development (unstable) (2022-12-25 r83502 ucrt) -- "Unsuffered Consequences" Copyright (C) 2022 The R Foundation for Statistical Computing Platform: x86_64-w64-mingw32/x64 (64-bit) R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > library(testthat) > suppressWarnings(suppressPackageStartupMessages(library(simplifyEnrichment))) > > test_check("simplifyEnrichment") [ FAIL 0 | WARN 0 | SKIP 0 | PASS 17 ] > > proc.time() user system elapsed 7.76 0.59 9.01
simplifyEnrichment.Rcheck/simplifyEnrichment-Ex.timings
name | user | system | elapsed | |
DO_similarity | 0 | 0 | 0 | |
GO_similarity | 0 | 0 | 0 | |
all_clustering_methods | 0 | 0 | 0 | |
anno_word_cloud | 1.72 | 0.15 | 1.89 | |
anno_word_cloud_from_GO | 0 | 0 | 0 | |
area_above_ecdf | 0 | 0 | 0 | |
binary_cut | 1.56 | 0.05 | 1.61 | |
cluster_by_MCL | 0 | 0 | 0 | |
cluster_by_apcluster | 0 | 0 | 0 | |
cluster_by_dynamicTreeCut | 0 | 0 | 0 | |
cluster_by_hdbscan | 0 | 0 | 0 | |
cluster_by_igraph | 0.00 | 0.01 | 0.01 | |
cluster_by_kmeans | 0 | 0 | 0 | |
cluster_by_mclust | 0 | 0 | 0 | |
cluster_by_pam | 0 | 0 | 0 | |
cluster_terms | 0 | 0 | 0 | |
cmp_make_clusters | 0 | 0 | 0 | |
cmp_make_plot | 0 | 0 | 0 | |
compare_clustering_methods | 0 | 0 | 0 | |
count_words | 0.42 | 0.04 | 0.45 | |
dend_node_apply | 0 | 0 | 0 | |
difference_score | 1.19 | 0.04 | 1.23 | |
edit_node | 0 | 0 | 0 | |
export_to_shiny_app | 0 | 0 | 0 | |
guess_ont | 0 | 0 | 0 | |
heightDetails.word_cloud | 0 | 0 | 0 | |
ht_clusters | 0 | 0 | 0 | |
keyword_enrichment_from_GO | 0 | 0 | 0 | |
partition_by_hclust | 0 | 0 | 0 | |
partition_by_kmeans | 0 | 0 | 0 | |
partition_by_kmeanspp | 0 | 0 | 0 | |
partition_by_pam | 0 | 0 | 0 | |
plot_binary_cut | 0 | 0 | 0 | |
random_DO | 0 | 0 | 0 | |
random_GO | 0 | 0 | 0 | |
register_clustering_methods | 0 | 0 | 0 | |
remove_clustering_methods | 0 | 0 | 0 | |
reset_clustering_methods | 0 | 0 | 0 | |
scale_fontsize | 0 | 0 | 0 | |
se_opt | 0 | 0 | 0 | |
select_cutoff | 0 | 0 | 0 | |
simplifyEnrichment | 0 | 0 | 0 | |
simplifyGO | 0 | 0 | 0 | |
simplifyGOFromMultipleLists | 0 | 0 | 0 | |
subset_enrichResult | 0 | 0 | 0 | |
term_similarity | 0 | 0 | 0 | |
term_similarity_from_KEGG | 0 | 0 | 0 | |
term_similarity_from_MSigDB | 0 | 0 | 0 | |
term_similarity_from_Reactome | 0 | 0 | 0 | |
term_similarity_from_enrichResult | 0 | 0 | 0 | |
term_similarity_from_gmt | 0 | 0 | 0 | |
widthDetails.word_cloud | 0 | 0 | 0 | |
word_cloud_grob | 0.10 | 0.00 | 0.14 | |