Package: IMMAN

Version: 1.3.02

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:IMMAN.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings IMMAN_1.3.02.tar.gz

StartedAt: 2019-04-09 02:50:37 -0400 (Tue, 09 Apr 2019)

EndedAt: 2019-04-09 02:58:58 -0400 (Tue, 09 Apr 2019)

EllapsedTime: 500.6 seconds

RetCode: 0

Status:  OK

CheckDir: IMMAN.Rcheck

Warnings: 0

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:IMMAN.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings IMMAN_1.3.02.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.9-bioc/meat/IMMAN.Rcheck’
* using R Under development (unstable) (2019-03-18 r76245)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘IMMAN/DESCRIPTION’ ... OK
* this is package ‘IMMAN’ version ‘1.3.02’
* package encoding: UTF-8
* 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 ‘IMMAN’ 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
IMMAN: no visible binding for global variable ‘tem’
IMMAN : <anonymous>: no visible binding for global variable ‘tem’
Undefined global functions or variables:
  tem
* 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
Examples with CPU or elapsed time > 5s
         user system elapsed
IMMAN 159.445  8.466 225.484
* 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
  ‘/Users/biocbuild/bbs-3.9-bioc/meat/IMMAN.Rcheck/00check.log’
for details.

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL IMMAN
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/3.6/Resources/library’
* installing *source* package ‘IMMAN’ ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** 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 (IMMAN)

R Under development (unstable) (2019-03-18 r76245) -- "Unsuffered Consequences"
Copyright (C) 2019 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin15.6.0 (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(IMMAN)
> 
> test_check("IMMAN")
trying URL 'http://string.uzh.ch/permanent/string/10/protein_aliases/6239__protein_aliases_tf.tsv.gz'
Content type 'application/x-gzip' length 3866324 bytes (3.7 MB)
==================================================
downloaded 3.7 MB

trying URL 'http://string.uzh.ch/permanent/string/10/proteins/6239__proteins.tsv.gz'
Content type 'application/x-gzip' length 792419 bytes (773 KB)
==================================================
downloaded 773 KB

trying URL 'http://string.uzh.ch/permanent/string/10/protein_aliases/7227__protein_aliases_tf.tsv.gz'
Content type 'application/x-gzip' length 4062637 bytes (3.9 MB)
==================================================
downloaded 3.9 MB

trying URL 'http://string.uzh.ch/permanent/string/10/proteins/7227__proteins.tsv.gz'
Content type 'application/x-gzip' length 648541 bytes (633 KB)
==================================================
downloaded 633 KB

trying URL 'http://string.uzh.ch/permanent/string/10/protein_links/6239__protein_links.tsv.gz'
Content type 'application/x-gzip' length 26272827 bytes (25.1 MB)
==================================================
downloaded 25.1 MB

trying URL 'http://string.uzh.ch/permanent/string/10/protein_links/7227__protein_links.tsv.gz'
Content type 'application/x-gzip' length 18188738 bytes (17.3 MB)
==================================================
downloaded 17.3 MB

══ testthat results  ═══════════════════════════════════════════════════════════
OK: 2 SKIPPED: 0 FAILED: 0
> 
> proc.time()
   user  system elapsed 
112.481   7.410 155.652 

name	user	system	elapsed
Celegance	0.018	0.004	0.022
FruitFly	0.005	0.004	0.008
H.sapiens	0.004	0.003	0.006
IMMAN	159.445	8.466	225.484
R.norvegicus	0.005	0.003	0.008