Back to Multiple platform build/check report for BioC 3.16: simplified long |
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This page was generated on 2023-04-12 11:06:28 -0400 (Wed, 12 Apr 2023).
Hostname | OS | Arch (*) | R version | Installed pkgs |
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nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4502 |
palomino4 | Windows Server 2022 Datacenter | x64 | 4.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle" | 4282 |
lconway | macOS 12.5.1 Monterey | x86_64 | 4.2.3 (2023-03-15) -- "Shortstop Beagle" | 4310 |
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 struct package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/struct.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 1984/2183 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
struct 1.10.0 (landing page) Gavin Rhys Lloyd
| nebbiolo2 | Linux (Ubuntu 20.04.5 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino4 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ![]() | ||||||||
lconway | macOS 12.5.1 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
Package: struct |
Version: 1.10.0 |
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:struct.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings struct_1.10.0.tar.gz |
StartedAt: 2023-04-10 22:58:30 -0400 (Mon, 10 Apr 2023) |
EndedAt: 2023-04-10 23:00:58 -0400 (Mon, 10 Apr 2023) |
EllapsedTime: 147.5 seconds |
RetCode: 0 |
Status: OK |
CheckDir: struct.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:struct.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings struct_1.10.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.16-bioc/meat/struct.Rcheck’ * using R version 4.2.3 (2023-03-15) * using platform: x86_64-apple-darwin17.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘struct/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘struct’ version ‘1.10.0’ * 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 ‘struct’ 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 ... 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 ‘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: OK
struct.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL struct ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.2/Resources/library’ * installing *source* package ‘struct’ ... ** 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 (struct)
struct.Rcheck/tests/testthat.Rout
R version 4.2.3 (2023-03-15) -- "Shortstop Beagle" Copyright (C) 2023 The R Foundation for Statistical Computing Platform: x86_64-apple-darwin17.0 (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(struct) > library(SummarizedExperiment) Loading required package: MatrixGenerics Loading required package: matrixStats Attaching package: 'MatrixGenerics' The following objects are masked from 'package:matrixStats': colAlls, colAnyNAs, colAnys, colAvgsPerRowSet, colCollapse, colCounts, colCummaxs, colCummins, colCumprods, colCumsums, colDiffs, colIQRDiffs, colIQRs, colLogSumExps, colMadDiffs, colMads, colMaxs, colMeans2, colMedians, colMins, colOrderStats, colProds, colQuantiles, colRanges, colRanks, colSdDiffs, colSds, colSums2, colTabulates, colVarDiffs, colVars, colWeightedMads, colWeightedMeans, colWeightedMedians, colWeightedSds, colWeightedVars, rowAlls, rowAnyNAs, rowAnys, rowAvgsPerColSet, rowCollapse, rowCounts, rowCummaxs, rowCummins, rowCumprods, rowCumsums, rowDiffs, rowIQRDiffs, rowIQRs, rowLogSumExps, rowMadDiffs, rowMads, rowMaxs, rowMeans2, rowMedians, rowMins, rowOrderStats, rowProds, rowQuantiles, rowRanges, rowRanks, rowSdDiffs, rowSds, rowSums2, rowTabulates, rowVarDiffs, rowVars, rowWeightedMads, rowWeightedMeans, rowWeightedMedians, rowWeightedSds, rowWeightedVars Loading required package: GenomicRanges Loading required package: stats4 Loading required package: BiocGenerics Attaching package: 'BiocGenerics' The following objects are masked from 'package:stats': IQR, mad, sd, var, xtabs The following objects are masked from 'package:base': Filter, Find, Map, Position, Reduce, anyDuplicated, aperm, append, as.data.frame, basename, cbind, colnames, dirname, do.call, duplicated, eval, evalq, get, grep, grepl, intersect, is.unsorted, lapply, mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank, rbind, rownames, sapply, setdiff, sort, table, tapply, union, unique, unsplit, which.max, which.min Loading required package: S4Vectors Attaching package: 'S4Vectors' The following objects are masked from 'package:base': I, expand.grid, unname Loading required package: IRanges Loading required package: GenomeInfoDb Loading required package: Biobase Welcome to Bioconductor Vignettes contain introductory material; view with 'browseVignettes()'. To cite Bioconductor, see 'citation("Biobase")', and for packages 'citation("pkgname")'. Attaching package: 'Biobase' The following object is masked from 'package:MatrixGenerics': rowMedians The following objects are masked from 'package:matrixStats': anyMissing, rowMedians > > test_check("struct") [ FAIL 0 | WARN 1 | SKIP 0 | PASS 150 ] [ FAIL 0 | WARN 1 | SKIP 0 | PASS 150 ] > > > > proc.time() user system elapsed 10.291 0.575 16.242
struct.Rcheck/struct-Ex.timings
name | user | system | elapsed | |
as.code | 0.044 | 0.005 | 0.050 | |
cash-ontology_list-method | 0.000 | 0.000 | 0.001 | |
cash-ontology_term-method | 0 | 0 | 0 | |
cash-set-struct_class-method | 0.007 | 0.001 | 0.009 | |
cash-struct_class-method | 0.005 | 0.001 | 0.006 | |
chart | 0.001 | 0.001 | 0.001 | |
chart_example | 0.007 | 0.001 | 0.008 | |
chart_names | 0.016 | 0.002 | 0.019 | |
chart_plot | 0.072 | 0.008 | 0.080 | |
citations | 0.101 | 0.013 | 0.116 | |
entity | 0.003 | 0.000 | 0.002 | |
entity_stato | 0.002 | 0.000 | 0.003 | |
enum | 0.003 | 0.000 | 0.004 | |
enum_stato | 0.005 | 0.000 | 0.005 | |
example_iterator | 0.018 | 0.001 | 0.018 | |
example_model | 0.127 | 0.004 | 0.132 | |
export_data | 0 | 0 | 0 | |
iris_DatasetExperiment | 0.018 | 0.001 | 0.018 | |
is_output | 0.006 | 0.001 | 0.007 | |
is_param | 0.005 | 0.001 | 0.006 | |
iterator | 0.104 | 0.013 | 0.119 | |
libraries | 0.006 | 0.001 | 0.007 | |
metric | 0.006 | 0.001 | 0.006 | |
model | 0.238 | 0.007 | 0.245 | |
model_apply | 0.076 | 0.001 | 0.078 | |
model_reverse | 0.020 | 0.001 | 0.020 | |
model_seq | 0.464 | 0.003 | 0.467 | |
models | 0.011 | 0.001 | 0.013 | |
new_struct | 0 | 0 | 0 | |
ontology | 0.011 | 0.000 | 0.011 | |
optimiser | 0.000 | 0.000 | 0.001 | |
output_ids | 0.003 | 0.000 | 0.004 | |
output_list | 0.048 | 0.000 | 0.049 | |
output_name | 0.005 | 0.000 | 0.004 | |
output_obj | 0.005 | 0.000 | 0.005 | |
output_value | 0.077 | 0.001 | 0.080 | |
param_ids | 0.004 | 0.000 | 0.004 | |
param_list | 0.011 | 0.000 | 0.012 | |
param_name | 0.004 | 0.000 | 0.004 | |
param_obj | 0.005 | 0.000 | 0.005 | |
param_value | 0.009 | 0.000 | 0.009 | |
predict | 0.039 | 0.001 | 0.040 | |
predicted | 0.557 | 0.005 | 0.562 | |
predicted_name | 0.004 | 0.001 | 0.004 | |
preprocessing | 0.013 | 0.000 | 0.013 | |
resampler | 0.001 | 0.000 | 0.001 | |
result | 0.026 | 0.001 | 0.027 | |
result_name | 0.001 | 0.000 | 0.001 | |
seq_in | 0.005 | 0.001 | 0.006 | |
set_obj_method | 0.014 | 0.000 | 0.014 | |
set_obj_show | 0.012 | 0.000 | 0.012 | |
stato | 0.421 | 0.018 | 0.441 | |
struct_class-class | 0.001 | 0.000 | 0.000 | |
struct_template | 0 | 0 | 0 | |
test_metric | 0.001 | 0.000 | 0.001 | |
train | 0.04 | 0.00 | 0.04 | |