sevenbridges 1.3.8
Tengfei Yin
| Snapshot Date: 2016-09-19 19:15:14 -0700 (Mon, 19 Sep 2016) | | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/sevenbridges | | Last Changed Rev: 120873 / Revision: 121152 | | Last Changed Date: 2016-09-12 08:31:47 -0700 (Mon, 12 Sep 2016) |
| zin1 | Linux (Ubuntu 16.04 LTS) / x86_64 | NotNeeded | OK | WARNINGS | |  |
| moscato1 | Windows Server 2008 R2 Standard (64-bit) / x64 | NotNeeded | ERROR | skipped | skipped | |
| morelia | Mac OS X Mavericks (10.9.5) / x86_64 | NotNeeded | OK | [ WARNINGS ] | OK | |
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### Running command:
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### /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings sevenbridges_1.3.8.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.4-bioc/meat/sevenbridges.Rcheck’
* using R version 3.3.1 (2016-06-21)
* using platform: x86_64-apple-darwin13.4.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘sevenbridges/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘sevenbridges’ version ‘1.3.8’
* 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 ‘sevenbridges’ can be installed ... OK
* checking installed package size ... NOTE
installed size is 5.2Mb
sub-directories of 1Mb or more:
R 1.1Mb
doc 3.5Mb
* 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 loading without being on the library search path ... OK
* checking dependencies in R code ... NOTE
Missing or unexported object: ‘liftr::parse_rmd’
Unexported objects imported by ':::' calls:
‘S4Vectors:::new_SimpleList_from_list’ ‘httr:::body_config’
‘httr:::compact’ ‘httr:::is.url’ ‘httr:::named’
‘httr:::request_build’ ‘httr:::request_perform’
See the note in ?`:::` about the use of this operator.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
ToolUI: no visible global function definition for ‘miniPage’
ToolUI: no visible global function definition for ‘gadgetTitleBar’
ToolUI: no visible global function definition for ‘miniCotentPanel’
ToolUI: no visible global function definition for ‘stableColumnLayout’
ToolUI: no visible global function definition for ‘textInput’
ToolUI: no visible global function definition for ‘uiOutput’
gen_list: no visible global function definition for ‘rdarg’
handle_url2: no visible global function definition for ‘is.url’
lift: no visible binding for global variable ‘tmp’
lift_docopt_from_function: no visible global function definition for
‘rdarg’
Undefined global functions or variables:
gadgetTitleBar is.url miniCotentPanel miniPage rdarg
stableColumnLayout textInput tmp uiOutput
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... WARNING
Functions or methods with usage in documentation object 'test_tool' but not in code:
test_tool
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU or elapsed time > 5s
user system elapsed
Flow 54.500 0.121 54.638
Tool-class 14.711 0.039 14.756
link_what 9.516 0.012 9.536
link 7.387 0.008 7.398
convert_app 6.467 0.010 6.479
* 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 WARNING, 3 NOTEs
See
‘/Users/biocbuild/bbs-3.4-bioc/meat/sevenbridges.Rcheck/00check.log’
for details.