Back to Multiple platform build/check report for BioC 3.18: simplified long |
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This page was generated on 2024-03-29 11:36:55 -0400 (Fri, 29 Mar 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.3.3 (2024-02-29) -- "Angel Food Cake" | 4669 |
palomino4 | Windows Server 2022 Datacenter | x64 | 4.3.3 (2024-02-29 ucrt) -- "Angel Food Cake" | 4404 |
merida1 | macOS 12.7.1 Monterey | x86_64 | 4.3.3 (2024-02-29) -- "Angel Food Cake" | 4427 |
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 |
Package 1077/2266 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
KEGGlincs 1.28.0 (landing page) Shana White
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | |||||||||
palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
merida1 | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kjohnson1 | macOS 13.6.1 Ventura / arm64 | see weekly results here | ||||||||||||
To the developers/maintainers of the KEGGlincs package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/KEGGlincs.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
Package: KEGGlincs |
Version: 1.28.0 |
Command: F:\biocbuild\bbs-3.18-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:KEGGlincs.install-out.txt --library=F:\biocbuild\bbs-3.18-bioc\R\library --no-vignettes --timings KEGGlincs_1.28.0.tar.gz |
StartedAt: 2024-03-28 02:06:42 -0400 (Thu, 28 Mar 2024) |
EndedAt: 2024-03-28 02:10:59 -0400 (Thu, 28 Mar 2024) |
EllapsedTime: 256.9 seconds |
RetCode: 0 |
Status: OK |
CheckDir: KEGGlincs.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.18-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:KEGGlincs.install-out.txt --library=F:\biocbuild\bbs-3.18-bioc\R\library --no-vignettes --timings KEGGlincs_1.28.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'F:/biocbuild/bbs-3.18-bioc/meat/KEGGlincs.Rcheck' * using R version 4.3.3 (2024-02-29 ucrt) * using platform: x86_64-w64-mingw32 (64-bit) * R was compiled by gcc.exe (GCC) 12.3.0 GNU Fortran (GCC) 12.3.0 * running under: Windows Server 2022 x64 (build 20348) * using session charset: UTF-8 * using option '--no-vignettes' * checking for file 'KEGGlincs/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'KEGGlincs' version '1.28.0' * 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 'KEGGlincs' 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 ... NOTE Namespace in Imports field not imported from: 'XML' All declared Imports should be used. * 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 Examples with CPU (user + system) or elapsed time > 5s user system elapsed overlap_info 24.70 1.50 28.06 add_edge_data 23.47 1.94 28.36 edge_mapping_info 15.01 0.82 16.19 path_genes_by_cell_type 15.03 0.56 15.78 refine_mappings 14.72 0.52 15.43 get_graph_object 13.69 0.67 14.95 * 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 'F:/biocbuild/bbs-3.18-bioc/meat/KEGGlincs.Rcheck/00check.log' for details.
KEGGlincs.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.18-bioc\R\bin\R.exe CMD INSTALL KEGGlincs ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.18-bioc/R/library' * installing *source* package 'KEGGlincs' ... ** 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 (KEGGlincs)
KEGGlincs.Rcheck/KEGGlincs-Ex.timings
name | user | system | elapsed | |
KEGG_lincs | 0 | 0 | 0 | |
KL_compare | 0 | 0 | 0 | |
add_edge_data | 23.47 | 1.94 | 28.36 | |
cyto_vis | 0.38 | 0.01 | 0.73 | |
edge_mapping_info | 15.01 | 0.82 | 16.19 | |
expand_KEGG_edges | 0.14 | 0.00 | 0.33 | |
expand_KEGG_mappings | 0.22 | 0.01 | 0.43 | |
generate_mappings | 0.02 | 0.00 | 0.02 | |
get_KGML | 0.18 | 0.00 | 0.75 | |
get_fisher_info | 0 | 0 | 0 | |
get_graph_object | 13.69 | 0.67 | 14.95 | |
keggerize_edges | 0 | 0 | 0 | |
node_mapping_info | 0.19 | 0.00 | 0.38 | |
overlap_info | 24.70 | 1.50 | 28.06 | |
path_genes_by_cell_type | 15.03 | 0.56 | 15.78 | |
refine_mappings | 14.72 | 0.52 | 15.43 | |
tidy_edge | 0 | 0 | 0 | |