Back to Multiple platform build/check report for BioC 3.15 |
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This page was generated on 2022-03-18 11:07:48 -0400 (Fri, 18 Mar 2022).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) | x86_64 | R Under development (unstable) (2022-02-17 r81757) -- "Unsuffered Consequences" | 4334 |
riesling1 | Windows Server 2019 Standard | x64 | R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences" | 4097 |
palomino3 | Windows Server 2022 Datacenter | x64 | R Under development (unstable) (2022-02-17 r81757 ucrt) -- "Unsuffered Consequences" | 4083 |
merida1 | macOS 10.14.6 Mojave | x86_64 | R Under development (unstable) (2022-03-02 r81842) -- "Unsuffered Consequences" | 4134 |
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 immunotation package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/immunotation.git to reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information. - Make sure to use the following settings in order to reproduce any error or warning you see on this page. |
Package 930/2090 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
immunotation 1.3.0 (landing page) Katharina Imkeller
| nebbiolo1 | Linux (Ubuntu 20.04.4 LTS) / x86_64 | OK | OK | OK | |||||||||
riesling1 | Windows Server 2019 Standard / x64 | OK | 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: immunotation |
Version: 1.3.0 |
Command: D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:immunotation.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings immunotation_1.3.0.tar.gz |
StartedAt: 2022-03-17 19:22:12 -0400 (Thu, 17 Mar 2022) |
EndedAt: 2022-03-17 19:24:44 -0400 (Thu, 17 Mar 2022) |
EllapsedTime: 152.6 seconds |
RetCode: 0 |
Status: OK |
CheckDir: immunotation.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:immunotation.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings immunotation_1.3.0.tar.gz ### ############################################################################## ############################################################################## * using log directory 'D:/biocbuild/bbs-3.15-bioc/meat/immunotation.Rcheck' * using R Under development (unstable) (2021-11-21 r81221) * using platform: x86_64-w64-mingw32 (64-bit) * using session charset: ISO8859-1 * using option '--no-vignettes' * checking for file 'immunotation/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'immunotation' version '1.3.0' * 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 whether package 'immunotation' can be installed ... OK * checking installed package size ... NOTE installed size is 6.3Mb sub-directories of 1Mb or more: R 3.8Mb extdata 2.2Mb * 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 ... 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 plot_allele_frequency 2.54 0.25 13.39 query_haplotype_frequencies 0.48 0.01 9.54 * checking for unstated dependencies in 'tests' ... OK * checking tests ... Running 'testthat.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: 1 NOTE See 'D:/biocbuild/bbs-3.15-bioc/meat/immunotation.Rcheck/00check.log' for details.
immunotation.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL immunotation ### ############################################################################## ############################################################################## * installing to library 'D:/biocbuild/bbs-3.15-bioc/R/library' * installing *source* package 'immunotation' ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices converting help for package 'immunotation' finding HTML links ... done assemble_protein_complex html build_allele_group html check_geographics html check_hla_locus html check_hla_selection html check_population html check_sample_size html check_standard html create_encode_handle html decode_MAC html encode_MAC html extract_population_id html extract_population_info html extract_population_name html extract_sample_info html fetch_encoded_MAC html getURL html get_G_group html get_P_group html get_external_file html get_mhcpan_input html get_nb_pages html get_serotypes html get_valid_geographics html get_valid_organisms html human_protein_complex_table html load_mro html mro.obo html parse_allele_freq_html html parse_haplotype_freq_html html plot_allele_frequency html query_allele_frequencies html query_haplotype_frequencies html query_population_detail html read_complete_freq_table html read_population_detail html retrieve_chain_lookup_table html verify_parameters html ** 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 (immunotation) Making 'packages.html' ... done
immunotation.Rcheck/tests/testthat.Rout
R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences" Copyright (C) 2021 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) > library(immunotation) > > test_check("immunotation") [ FAIL 0 | WARN 0 | SKIP 0 | PASS 146 ] Warning messages: 1: closing unused connection 9 (https://iamnotanurl) 2: closing unused connection 8 (https://iamnotanurl) 3: closing unused connection 6 (https://iamnotanurl) 4: closing unused connection 5 (https://iamnotanurl) 5: closing unused connection 4 (https://iamnotanurl) > > > proc.time() user system elapsed 47.75 2.92 85.82
immunotation.Rcheck/immunotation-Ex.timings
name | user | system | elapsed | |
assemble_protein_complex | 1.46 | 0.14 | 1.59 | |
build_allele_group | 0.90 | 0.01 | 0.93 | |
decode_MAC | 0.10 | 0.02 | 0.26 | |
encode_MAC | 0.00 | 0.00 | 0.05 | |
get_G_group | 0.01 | 0.00 | 0.01 | |
get_P_group | 0.02 | 0.00 | 0.02 | |
get_mhcpan_input | 0.01 | 0.00 | 0.01 | |
get_serotypes | 0.02 | 0.00 | 0.02 | |
get_valid_organisms | 0.01 | 0.00 | 0.02 | |
human_protein_complex_table | 0.32 | 0.33 | 0.64 | |
plot_allele_frequency | 2.54 | 0.25 | 13.39 | |
query_allele_frequencies | 0.13 | 0.02 | 1.63 | |
query_haplotype_frequencies | 0.48 | 0.01 | 9.54 | |
query_population_detail | 0.02 | 0.00 | 0.36 | |
retrieve_chain_lookup_table | 0.52 | 0.02 | 0.53 | |