Chris Fraley
| Snapshot Date: 2019-10-15 17:01:26 -0400 (Tue, 15 Oct 2019) |
| URL: https://git.bioconductor.org/packages/spotSegmentation |
| Branch: RELEASE_3_9 |
| Last Commit: 5cd8df7 |
| Last Changed Date: 2019-05-02 11:53:03 -0400 (Thu, 02 May 2019) |
| Back to Multiple platform build/check report for BioC 3.9 |
|
This page was generated on 2019-10-16 11:55:37 -0400 (Wed, 16 Oct 2019).
| Package 1577/1741 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||
| spotSegmentation 1.58.0 Chris Fraley
| malbec2 | Linux (Ubuntu 18.04.2 LTS) / x86_64 | OK | OK | [ WARNINGS ] | | ||||||
| tokay2 | Windows Server 2012 R2 Standard / x64 | OK | OK | WARNINGS | OK | | ||||||
| celaya2 | OS X 10.11.6 El Capitan / x86_64 | OK | OK | WARNINGS | OK | |
| Package: spotSegmentation |
| Version: 1.58.0 |
| Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:spotSegmentation.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings spotSegmentation_1.58.0.tar.gz |
| StartedAt: 2019-10-16 05:13:37 -0400 (Wed, 16 Oct 2019) |
| EndedAt: 2019-10-16 05:14:02 -0400 (Wed, 16 Oct 2019) |
| EllapsedTime: 25.3 seconds |
| RetCode: 0 |
| Status: WARNINGS |
| CheckDir: spotSegmentation.Rcheck |
| Warnings: 1 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD check --install=check:spotSegmentation.install-out.txt --library=/home/biocbuild/bbs-3.9-bioc/R/library --no-vignettes --timings spotSegmentation_1.58.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.9-bioc/meat/spotSegmentation.Rcheck’
* using R version 3.6.1 (2019-07-05)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘spotSegmentation/DESCRIPTION’ ... OK
* this is package ‘spotSegmentation’ version ‘1.58.0’
* 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 ‘spotSegmentation’ can be installed ... OK
* checking installed package size ... OK
* checking package 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
Package in Depends field not imported from: ‘mclust’
These packages need to be imported from (in the NAMESPACE file)
for when this namespace is loaded but not attached.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
plot.spotseg : plotSpotImage: no visible global function definition for
‘par’
plot.spotseg : plotSpotImage: no visible global function definition for
‘image’
plot.spotseg: no visible global function definition for ‘postscript’
plotBlockImage: no visible global function definition for ‘par’
plotBlockImage: no visible global function definition for ‘image’
plotBlockImage: no visible global function definition for ‘gray’
spotgrid : spotgridPeaks: no visible global function definition for
‘runif’
spotgrid : spotgridPeaks: no visible global function definition for
‘embed’
spotgrid: no visible global function definition for ‘contour’
spotseg : spotseg1 : plotSpotImage: no visible global function
definition for ‘par’
spotseg : spotseg1 : plotSpotImage: no visible global function
definition for ‘image’
spotseg : spotseg1: no visible global function definition for
‘mclustBIC’
spotseg : spotseg1: no visible global function definition for ‘hcE’
spotseg : spotseg1: no visible global function definition for ‘frame’
spotseg: no visible global function definition for ‘par’
spotseg: no visible global function definition for ‘median’
Undefined global functions or variables:
contour embed frame gray hcE image mclustBIC median par postscript
runif
Consider adding
importFrom("grDevices", "gray", "postscript")
importFrom("graphics", "contour", "frame", "image", "par")
importFrom("stats", "embed", "median", "runif")
to your NAMESPACE file.
* checking Rd files ... NOTE
prepare_Rd: plot.spotseg.Rd:23: Dropping empty section \author
prepare_Rd: plotBlockImage.Rd:20: Dropping empty section \author
prepare_Rd: spotgrid.Rd:21: Dropping empty section \details
prepare_Rd: spotgrid.Rd:33: Dropping empty section \note
prepare_Rd: spotgrid.Rd:34: Dropping empty section \author
prepare_Rd: spotseg.Rd:45: Dropping empty section \author
prepare_Rd: summary.spotseg.Rd:27: Dropping empty section \author
* 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’ ... WARNING
Files in the 'vignettes' directory but no files in 'inst/doc':
‘spotsegdoc.pdf’
Package has no Sweave vignette sources and no VignetteBuilder field.
* checking examples ... OK
* checking PDF version of manual ... OK
* DONE
Status: 1 WARNING, 3 NOTEs
See
‘/home/biocbuild/bbs-3.9-bioc/meat/spotSegmentation.Rcheck/00check.log’
for details.
spotSegmentation.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL spotSegmentation ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’ * installing *source* package ‘spotSegmentation’ ... ** using staged installation ** R ** data ** 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 (spotSegmentation)
spotSegmentation.Rcheck/spotSegmentation-Ex.timings
| name | user | system | elapsed | |
| plot.spotseg | 2.419 | 0.004 | 2.424 | |
| plotBlockImage | 0.148 | 0.004 | 0.151 | |
| spotgrid | 0.157 | 0.004 | 0.161 | |
| spotseg | 1.604 | 0.000 | 1.605 | |
| summary.spotseg | 1.850 | 0.012 | 1.862 | |