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BioC 3.5: CHECK report for heatmaps on tokay2

This page was generated on 2017-10-18 14:27:12 -0400 (Wed, 18 Oct 2017).

Package 619/1381HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
heatmaps 1.0.0
Malcolm Perry
Snapshot Date: 2017-10-17 17:00:52 -0400 (Tue, 17 Oct 2017)
URL: https://git.bioconductor.org/packages/heatmaps
Branch: RELEASE_3_5
Last Commit: 1ff030f
Last Changed Date: 2017-04-24 15:45:44 -0400 (Mon, 24 Apr 2017)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  NotNeeded  OK [ OK ] OK UNNEEDED, same version exists in internal repository
veracruz2 OS X 10.11.6 El Capitan / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: heatmaps
Version: 1.0.0
Command: rm -rf heatmaps.buildbin-libdir heatmaps.Rcheck && mkdir heatmaps.buildbin-libdir heatmaps.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=heatmaps.buildbin-libdir heatmaps_1.0.0.tar.gz >heatmaps.Rcheck\00install.out 2>&1 && cp heatmaps.Rcheck\00install.out heatmaps-install.out && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=heatmaps.buildbin-libdir --install="check:heatmaps-install.out" --force-multiarch --no-vignettes --timings heatmaps_1.0.0.tar.gz
StartedAt: 2017-10-18 00:32:59 -0400 (Wed, 18 Oct 2017)
EndedAt: 2017-10-18 00:36:29 -0400 (Wed, 18 Oct 2017)
EllapsedTime: 209.1 seconds
RetCode: 0
Status:  OK  
CheckDir: heatmaps.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf heatmaps.buildbin-libdir heatmaps.Rcheck && mkdir heatmaps.buildbin-libdir heatmaps.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=heatmaps.buildbin-libdir heatmaps_1.0.0.tar.gz >heatmaps.Rcheck\00install.out 2>&1 && cp heatmaps.Rcheck\00install.out heatmaps-install.out  &&  C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=heatmaps.buildbin-libdir --install="check:heatmaps-install.out" --force-multiarch --no-vignettes --timings heatmaps_1.0.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.5-bioc/meat/heatmaps.Rcheck'
* using R version 3.4.2 Patched (2017-10-07 r73498)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'heatmaps/DESCRIPTION' ... OK
* this is package 'heatmaps' 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 whether package 'heatmaps' can be installed ... OK
* checking installed package size ... NOTE
  installed size is  9.4Mb
  sub-directories of 1Mb or more:
    doc       2.1Mb
    extdata   6.9Mb
* 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
* loading checks for arch 'i386'
** 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 loading without being on the library search path ... OK
* loading checks for arch 'x64'
** 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 loading without being on the library search path ... 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
makeGaussian2D: no visible binding for global variable 'dnorm'
Undefined global functions or variables:
  dnorm
Consider adding
  importFrom("stats", "dnorm")
to your NAMESPACE file.
* 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 ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'testthat.R'
 OK
** running tests for arch 'x64' ...
  Running 'testthat.R'
 OK
* checking for unstated dependencies in vignettes ... NOTE
'library' or 'require' call not declared from: 'rtracklayer'
* 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: 3 NOTEs
See
  'C:/Users/biocbuild/bbs-3.5-bioc/meat/heatmaps.Rcheck/00check.log'
for details.


heatmaps.Rcheck/00install.out:


install for i386

* installing *source* package 'heatmaps' ...
** R
** data
** inst
** preparing package for lazy loading
Creating a new generic function for 'scale' in package 'heatmaps'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'heatmaps' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'heatmaps' as heatmaps_1.0.0.zip
* DONE (heatmaps)

heatmaps.Rcheck/examples_i386/heatmaps-Ex.timings:

nameusersystemelapsed
CoverageHeatmap0.280.000.28
Heatmap-class0.020.000.01
Heatmap0.010.000.02
PWMScanHeatmap0.030.020.05
PatternHeatmap0.110.000.11
coords0.020.000.01
default_color000
getScale000
heatmapOptions0.610.050.66
image0.010.000.01
label0.020.000.02
metadata000
nseq000
plotHeatmap0.030.010.05
plotHeatmapList0.130.020.14
plotHeatmapMeta0.030.000.03
plotPatternDensityMap0.430.080.51
plot_clusters0.060.000.06
plot_legend0.020.000.02
scale0.000.010.01
smoothHeatmap0.280.030.32
xm0.010.000.02
ym0.020.000.01

heatmaps.Rcheck/examples_x64/heatmaps-Ex.timings:

nameusersystemelapsed
CoverageHeatmap0.310.050.36
Heatmap-class0.020.000.02
Heatmap0.020.000.02
PWMScanHeatmap0.030.000.03
PatternHeatmap0.170.000.17
coords0.010.000.01
default_color000
getScale000
heatmapOptions0.760.000.77
image0.000.010.01
label0.000.020.02
metadata0.020.000.01
nseq0.020.000.02
plotHeatmap0.030.010.05
plotHeatmapList0.650.020.67
plotHeatmapMeta0.050.000.04
plotPatternDensityMap0.870.080.96
plot_clusters0.070.010.08
plot_legend0.010.000.01
scale0.020.000.02
smoothHeatmap0.030.050.07
xm0.020.000.02
ym0.000.020.02