Back to Multiple platform build/check report for BioC 3.20: simplified long |
|
This page was generated on 2024-11-20 12:02 -0500 (Wed, 20 Nov 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
teran2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4481 |
nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.4.2 (2024-10-31) -- "Pile of Leaves" | 4479 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" | 4359 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4539 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4493 |
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 1255/2289 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
MicrobiomeProfiler 1.12.0 (landing page) Guangchuang Yu
| teran2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | |||||||||
nebbiolo2 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | OK | OK | ||||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | |||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | |||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
To the developers/maintainers of the MicrobiomeProfiler package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/MicrobiomeProfiler.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: MicrobiomeProfiler |
Version: 1.12.0 |
Command: /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:MicrobiomeProfiler.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings MicrobiomeProfiler_1.12.0.tar.gz |
StartedAt: 2024-11-20 05:43:30 -0500 (Wed, 20 Nov 2024) |
EndedAt: 2024-11-20 05:45:34 -0500 (Wed, 20 Nov 2024) |
EllapsedTime: 124.5 seconds |
RetCode: 0 |
Status: OK |
CheckDir: MicrobiomeProfiler.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD check --install=check:MicrobiomeProfiler.install-out.txt --library=/home/biocbuild/bbs-3.20-bioc/R/site-library --timings MicrobiomeProfiler_1.12.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/meat/MicrobiomeProfiler.Rcheck’ * using R version 4.4.2 (2024-10-31) * using platform: x86_64-pc-linux-gnu * R was compiled by gcc (Ubuntu 13.2.0-23ubuntu4) 13.2.0 GNU Fortran (Ubuntu 13.2.0-23ubuntu4) 13.2.0 * running under: Ubuntu 24.04.1 LTS * using session charset: UTF-8 * checking for file ‘MicrobiomeProfiler/DESCRIPTION’ ... OK * this is package ‘MicrobiomeProfiler’ version ‘1.12.0’ * package encoding: UTF-8 * 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 ‘MicrobiomeProfiler’ 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 code 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 loading without being on the library search path ... 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 ... 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 contents of ‘data’ directory ... OK * checking data for non-ASCII characters ... OK * checking data for ASCII and uncompressed saves ... OK * checking R/sysdata.rda ... OK * checking files in ‘vignettes’ ... OK * checking examples ... OK * checking for unstated dependencies in ‘tests’ ... OK * checking tests ... Running ‘testthat.R’ OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking re-building of vignette outputs ... OK * checking PDF version of manual ... OK * DONE Status: OK
MicrobiomeProfiler.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.20-bioc/R/bin/R CMD INSTALL MicrobiomeProfiler ### ############################################################################## ############################################################################## * installing to library ‘/media/volume/teran2_disk/biocbuild/bbs-3.20-bioc/R/site-library’ * installing *source* package ‘MicrobiomeProfiler’ ... ** using staged installation ** R ** data ** 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 (MicrobiomeProfiler)
MicrobiomeProfiler.Rcheck/tests/testthat.Rout
R version 4.4.2 (2024-10-31) -- "Pile of Leaves" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-pc-linux-gnu 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) > library(MicrobiomeProfiler) > test_check("MicrobiomeProfiler") --> No gene can be mapped.... --> Expected input gene ID: 1.2.1.90,1.2.7.5,5.3.1.1,3.1.3.11,1.1.1.43,1.1.5.9 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: COG0060,COG0079,COG0002,COG0097,COG0046,COG0077 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: 84112,1308,310298,165179,29523,39491 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: PW_C002766,PW_C000071,PW_C001005,PW_C000969,PW_C000723,PW_C001148 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: C00191,C00103,C00181,C00122,C00197,C06473 --> return NULL... --> No gene can be mapped.... --> Expected input gene ID: HMDB0000595,HMDB0000042,HMDB0000056,HMDB0001423,HMDB0000217,HMDB0000828 --> return NULL... [ FAIL 0 | WARN 0 | SKIP 0 | PASS 12 ] > > > proc.time() user system elapsed 5.974 0.413 6.380
MicrobiomeProfiler.Rcheck/MicrobiomeProfiler-Ex.timings
name | user | system | elapsed | |
Psoriasis_data | 0.002 | 0.000 | 0.002 | |
Rat_data | 0.000 | 0.001 | 0.001 | |
enrichCOG | 0.043 | 0.007 | 0.049 | |
enrichHMDB | 0.018 | 0.002 | 0.020 | |
enrichKO | 0.248 | 0.012 | 0.261 | |
enrichMBKEGG | 0.063 | 0.004 | 0.067 | |
enrichMDA | 0.091 | 0.002 | 0.094 | |
enrichModule | 0.032 | 0.001 | 0.032 | |
enrichSMPDB | 0.068 | 0.004 | 0.072 | |
microbiota_taxlist | 0.001 | 0.001 | 0.001 | |
run_MicrobiomeProfiler | 0 | 0 | 0 | |