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This page was generated on 2021-10-15 15:06:33 -0400 (Fri, 15 Oct 2021).
To the developers/maintainers of the DelayedMatrixStats package: - Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/DelayedMatrixStats.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 471/2041 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
DelayedMatrixStats 1.14.3 (landing page) Peter Hickey
| nebbiolo1 | Linux (Ubuntu 20.04.2 LTS) / x86_64 | OK | OK | OK | |||||||||
tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | |||||||||
machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | OK | OK | |||||||||
Package: DelayedMatrixStats |
Version: 1.14.3 |
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:DelayedMatrixStats.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings DelayedMatrixStats_1.14.3.tar.gz |
StartedAt: 2021-10-14 18:13:22 -0400 (Thu, 14 Oct 2021) |
EndedAt: 2021-10-14 18:19:50 -0400 (Thu, 14 Oct 2021) |
EllapsedTime: 388.0 seconds |
RetCode: 0 |
Status: OK |
CheckDir: DelayedMatrixStats.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:DelayedMatrixStats.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings DelayedMatrixStats_1.14.3.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/Users/biocbuild/bbs-3.13-bioc/meat/DelayedMatrixStats.Rcheck’ * using R version 4.1.1 (2021-08-10) * using platform: x86_64-apple-darwin17.0 (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘DelayedMatrixStats/DESCRIPTION’ ... OK * checking extension type ... Package * this is package ‘DelayedMatrixStats’ version ‘1.14.3’ * 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 ... NOTE Found the following hidden files and directories: .git_fetch_output.txt .git_merge_output.txt These were most likely included in error. See section ‘Package structure’ in the ‘Writing R Extensions’ manual. * checking for portable file names ... OK * checking for sufficient/correct file permissions ... OK * checking whether package ‘DelayedMatrixStats’ 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 Missing object imported by a ':::' call: ‘DelayedArray:::.reduce_array_dimensions’ Unexported objects imported by ':::' calls: ‘DelayedArray:::.get_ans_type’ ‘DelayedArray:::RleArraySeed’ ‘DelayedArray:::get_Nindex_lengths’ ‘DelayedArray:::set_dim’ ‘DelayedArray:::set_dimnames’ ‘DelayedArray:::subset_by_Nindex’ ‘DelayedArray:::to_linear_index’ 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 ‘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: 2 NOTEs See ‘/Users/biocbuild/bbs-3.13-bioc/meat/DelayedMatrixStats.Rcheck/00check.log’ for details.
DelayedMatrixStats.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL DelayedMatrixStats ### ############################################################################## ############################################################################## * installing to library ‘/Library/Frameworks/R.framework/Versions/4.1/Resources/library’ * installing *source* package ‘DelayedMatrixStats’ ... ** 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 (DelayedMatrixStats)
DelayedMatrixStats.Rcheck/tests/testthat.Rout
R version 4.1.1 (2021-08-10) -- "Kick Things" Copyright (C) 2021 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(DelayedMatrixStats) 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: DelayedArray Loading required package: stats4 Loading required package: Matrix Loading required package: BiocGenerics Loading required package: parallel Attaching package: 'BiocGenerics' The following objects are masked from 'package:parallel': clusterApply, clusterApplyLB, clusterCall, clusterEvalQ, clusterExport, clusterMap, parApply, parCapply, parLapply, parLapplyLB, parRapply, parSapply, parSapplyLB 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, 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:Matrix': expand, unname The following objects are masked from 'package:base': I, expand.grid, unname Loading required package: IRanges Attaching package: 'DelayedArray' The following objects are masked from 'package:base': aperm, apply, rowsum, scale, sweep Attaching package: 'DelayedMatrixStats' The following objects are masked from 'package:matrixStats': colAnyMissings, rowAnyMissings > > test_check("DelayedMatrixStats") Loading required package: rhdf5 Attaching package: 'HDF5Array' The following object is masked from 'package:rhdf5': h5ls [ FAIL 0 | WARN 0 | SKIP 0 | PASS 14732 ] > > proc.time() user system elapsed 238.855 6.547 251.847
DelayedMatrixStats.Rcheck/DelayedMatrixStats-Ex.timings
name | user | system | elapsed | |
colAlls | 0.123 | 0.006 | 0.130 | |
colAnyNAs | 0.538 | 0.047 | 0.586 | |
colAvgsPerRowSet | 0.269 | 0.004 | 0.273 | |
colCollapse | 0.137 | 0.010 | 0.146 | |
colCounts | 0.137 | 0.002 | 0.139 | |
colCummaxs | 0.183 | 0.008 | 0.192 | |
colDiffs | 0.185 | 0.019 | 0.204 | |
colIQRDiffs | 0.164 | 0.002 | 0.166 | |
colIQRs | 0.008 | 0.000 | 0.008 | |
colLogSumExps | 0.033 | 0.001 | 0.034 | |
colMads | 0.152 | 0.001 | 0.175 | |
colMeans2 | 0.032 | 0.001 | 0.034 | |
colMedians | 0.029 | 0.001 | 0.029 | |
colOrderStats | 0.057 | 0.002 | 0.059 | |
colProds | 0.097 | 0.010 | 0.107 | |
colQuantiles | 0.043 | 0.001 | 0.043 | |
colRanks | 0.028 | 0.001 | 0.030 | |
colSums2 | 0.016 | 0.001 | 0.018 | |
colTabulates | 0.175 | 0.001 | 0.177 | |
colVars | 0.101 | 0.008 | 0.109 | |
colWeightedMads | 0.004 | 0.000 | 0.005 | |
colWeightedMeans | 0.054 | 0.001 | 0.055 | |
colWeightedMedians | 0.033 | 0.001 | 0.035 | |
colWeightedVars | 0.143 | 0.002 | 0.144 | |