Package: RNAprobR

Version: 1.18.0

Command: /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:RNAprobR.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings RNAprobR_1.18.0.tar.gz

StartedAt: 2020-04-15 02:51:43 -0400 (Wed, 15 Apr 2020)

EndedAt: 2020-04-15 02:55:46 -0400 (Wed, 15 Apr 2020)

EllapsedTime: 242.9 seconds

RetCode: 0

Status:  WARNINGS

CheckDir: RNAprobR.Rcheck

Warnings: 1

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### Running command:
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###   /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD check --install=check:RNAprobR.install-out.txt --library=/home/biocbuild/bbs-3.10-bioc/R/library --no-vignettes --timings RNAprobR_1.18.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.10-bioc/meat/RNAprobR.Rcheck’
* using R version 3.6.3 (2020-02-29)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘RNAprobR/DESCRIPTION’ ... OK
* this is package ‘RNAprobR’ version ‘1.18.0’
* 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 ‘RNAprobR’ 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 ... 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 ... WARNING
Found the following significant warnings:

  Warning: 'GenomicRangesList' is deprecated.
Deprecated functions may be defunct as soon as of the next release of
R.
See ?Deprecated.
* 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 WARNING
See
  ‘/home/biocbuild/bbs-3.10-bioc/meat/RNAprobR.Rcheck/00check.log’
for details.

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### Running command:
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###   /home/biocbuild/bbs-3.10-bioc/R/bin/R CMD INSTALL RNAprobR
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* installing to library ‘/home/biocbuild/bbs-3.10-bioc/R/library’
* installing *source* package ‘RNAprobR’ ...
** 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 (RNAprobR)

name	user	system	elapsed
BED2txDb	1.000	0.016	1.015
GR2norm_df	0.440	0.004	0.445
bedgraph2norm	3.100	0.088	3.191
comp	0.144	0.000	0.147
compdata	0.332	0.004	0.338
correct_oversaturation	0.068	0.000	0.066
dtcr	0.424	0.004	0.429
k2n_calc	0.012	0.000	0.009
norm2bedgraph	0.964	0.000	0.971
norm_df2GR	0.020	0.004	0.024
plotRNA	0.224	0.000	0.221
plotReads	0.128	0.000	0.128
readsamples	0.02	0.00	0.02
slograt	0.320	0.000	0.319
swinsor	0.216	0.000	0.221
swinsor_vector	0.024	0.000	0.023
winsor	0.004	0.000	0.003