VJ Carey
| Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018) |
| URL: https://git.bioconductor.org/packages/pogos |
| Branch: RELEASE_3_7 |
| Last Commit: 6cab2e7 |
| Last Changed Date: 2018-04-30 10:35:49 -0400 (Mon, 30 Apr 2018) |
| Back to Multiple platform build/check report for BioC 3.7 |
|
This page was generated on 2018-10-17 08:31:09 -0400 (Wed, 17 Oct 2018).
| Package 1111/1561 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| pogos 1.0.0 VJ Carey
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | [ OK ] | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | OK | OK | | ||||||
| merida2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | OK | OK | |
| Package: pogos |
| Version: 1.0.0 |
| Command: /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD check --install=check:pogos.install-out.txt --library=/home/biocbuild/bbs-3.7-bioc/R/library --no-vignettes --timings pogos_1.0.0.tar.gz |
| StartedAt: 2018-10-16 02:46:13 -0400 (Tue, 16 Oct 2018) |
| EndedAt: 2018-10-16 02:47:22 -0400 (Tue, 16 Oct 2018) |
| EllapsedTime: 69.3 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: pogos.Rcheck |
| Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD check --install=check:pogos.install-out.txt --library=/home/biocbuild/bbs-3.7-bioc/R/library --no-vignettes --timings pogos_1.0.0.tar.gz ### ############################################################################## ############################################################################## * using log directory ‘/home/biocbuild/bbs-3.7-bioc/meat/pogos.Rcheck’ * using R version 3.5.1 Patched (2018-07-12 r74967) * using platform: x86_64-pc-linux-gnu (64-bit) * using session charset: UTF-8 * using option ‘--no-vignettes’ * checking for file ‘pogos/DESCRIPTION’ ... OK * this is package ‘pogos’ version ‘1.0.0’ * 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 for sufficient/correct file permissions ... OK * checking whether package ‘pogos’ 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 ... NOTE compoundsByCell: no visible binding for global variable ‘cell_lines_v1’ compoundsByCell: no visible binding for global variable ‘compounds_v1’ compoundsByCell: no visible binding for global variable ‘datasets_v1’ lkc: no visible binding for global variable ‘cell_lines_v1’ lkc: no visible binding for global variable ‘compounds_v1’ lkc: no visible binding for global variable ‘datasets_v1’ plot,DRProfSet-missing: no visible binding for global variable ‘dose’ plot,DRProfSet-missing: no visible binding for global variable ‘response’ plot,DRProfSet-missing: no visible binding for global variable ‘drug’ plot,DRTraceSet-missing: no visible binding for global variable ‘dose’ plot,DRTraceSet-missing: no visible binding for global variable ‘response’ plot,DRTraceSet-missing: no visible binding for global variable ‘cell_line’ Undefined global functions or variables: cell_line cell_lines_v1 compounds_v1 datasets_v1 dose drug response * 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 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: 1 NOTE See ‘/home/biocbuild/bbs-3.7-bioc/meat/pogos.Rcheck/00check.log’ for details.
pogos.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.7-bioc/R/bin/R CMD INSTALL pogos ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.7-bioc/R/library’ * installing *source* package ‘pogos’ ... ** R ** data *** moving datasets to lazyload DB ** 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 * DONE (pogos)
pogos.Rcheck/tests/testthat.Rout
R version 3.5.1 Patched (2018-07-12 r74967) -- "Feather Spray"
Copyright (C) 2018 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (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(pogos)
Loading required package: rjson
Loading required package: httr
>
> test_check("pogos")
══ testthat results ═══════════════════════════════════════════════════════════
OK: 5 SKIPPED: 0 FAILED: 0
>
> proc.time()
user system elapsed
3.188 0.084 3.658
pogos.Rcheck/pogos-Ex.timings
| name | user | system | elapsed | |
| DRProfSet | 0.004 | 0.000 | 0.013 | |
| DRTraceSet | 0.960 | 0.052 | 1.602 | |
| basicDecoder | 0.008 | 0.000 | 0.037 | |
| compoundsByCell | 0.004 | 0.000 | 0.001 | |
| compounds_v1 | 0.040 | 0.012 | 0.053 | |
| iriCCLE | 0.296 | 0.024 | 0.320 | |
| rxdbQuery_v1 | 0.008 | 0.000 | 0.045 | |
| topEndpoints_v1 | 0 | 0 | 0 | |
| traces | 0.012 | 0.000 | 0.013 | |