| Back to Multiple platform build/check report for BioC 3.11 |
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This page was generated on 2020-10-17 11:55:16 -0400 (Sat, 17 Oct 2020).
| TO THE DEVELOPERS/MAINTAINERS OF THE NormqPCR PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page. |
| Package 1202/1905 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| NormqPCR 1.34.0 James Perkins
| malbec2 | Linux (Ubuntu 18.04.4 LTS) / x86_64 | OK | OK | [ OK ] | |||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | |||||||
| machv2 | macOS 10.14.6 Mojave / x86_64 | OK | OK | WARNINGS | OK |
| Package: NormqPCR |
| Version: 1.34.0 |
| Command: /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD check --install=check:NormqPCR.install-out.txt --library=/home/biocbuild/bbs-3.11-bioc/R/library --no-vignettes --timings NormqPCR_1.34.0.tar.gz |
| StartedAt: 2020-10-17 03:42:27 -0400 (Sat, 17 Oct 2020) |
| EndedAt: 2020-10-17 03:44:28 -0400 (Sat, 17 Oct 2020) |
| EllapsedTime: 121.0 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: NormqPCR.Rcheck |
| Warnings: 0 |
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### Running command:
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### /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD check --install=check:NormqPCR.install-out.txt --library=/home/biocbuild/bbs-3.11-bioc/R/library --no-vignettes --timings NormqPCR_1.34.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.11-bioc/meat/NormqPCR.Rcheck’
* using R version 4.0.3 (2020-10-10)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘NormqPCR/DESCRIPTION’ ... OK
* this is package ‘NormqPCR’ version ‘1.34.0’
* 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 ‘NormqPCR’ 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
CqValues,CyclesSet: no visible binding for global variable ‘l5’
Undefined global functions or variables:
l5
* 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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
user system elapsed
CqValues 46.334 0.091 46.482
* 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-3.11-bioc/meat/NormqPCR.Rcheck/00check.log’
for details.
NormqPCR.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.11-bioc/R/bin/R CMD INSTALL NormqPCR ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.11-bioc/R/library’ * installing *source* package ‘NormqPCR’ ... ** using staged installation ** 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 ‘NormqPCR.Rnw’ ** 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 (NormqPCR)
NormqPCR.Rcheck/NormqPCR-Ex.timings
| name | user | system | elapsed | |
| Bladder | 0.022 | 0.003 | 0.027 | |
| BladderRepro | 0.006 | 0.003 | 0.010 | |
| Colon | 0.011 | 0.001 | 0.011 | |
| ComputeNRQs | 0.359 | 0.000 | 0.389 | |
| CqValues | 46.334 | 0.091 | 46.482 | |
| NormqPCR-package | 0 | 0 | 0 | |
| combineTechReps | 0.047 | 0.000 | 0.059 | |
| combineTechRepsSD | 0.072 | 0.000 | 0.071 | |
| deltaCt | 0.102 | 0.000 | 0.105 | |
| deltaDeltaCt | 0.135 | 0.000 | 0.135 | |
| geNorm | 0.008 | 0.000 | 0.008 | |
| geomMean | 0.001 | 0.000 | 0.001 | |
| makeAllNAs | 0.085 | 0.000 | 0.085 | |
| makeAllNewVal | 0.081 | 0.003 | 0.085 | |
| replaceAboveCutOff | 0.126 | 0.000 | 0.126 | |
| replaceNAs | 0.138 | 0.000 | 0.138 | |
| selectHKs | 0.041 | 0.004 | 0.045 | |
| stabMeasureM | 0.185 | 0.000 | 0.185 | |
| stabMeasureRho | 0.126 | 0.019 | 0.146 | |