GENE.E 1.15.0 Joshua Gould
Snapshot Date: 2016-10-31 17:15:15 -0400 (Mon, 31 Oct 2016) | URL: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/GENE.E | Last Changed Rev: 122712 / Revision: 123212 | Last Changed Date: 2016-10-17 15:10:43 -0400 (Mon, 17 Oct 2016) |
| malbec2 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | NotNeeded | OK | [ OK ] | | ![UNNEEDED, same version exists in internal repository UNNEEDED, same version exists in internal repository](../120px-Blue_Light_Icon.svg.png) |
oaxaca | Mac OS X Mavericks (10.9.5) / x86_64 | NotNeeded | OK | OK | OK | ![UNNEEDED, same version exists in internal repository UNNEEDED, same version exists in internal repository](../120px-Blue_Light_Icon.svg.png) |
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### Running command:
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### /home/biocbuild/bbs-3.5-bioc/R/bin/R CMD check --no-vignettes --timings GENE.E_1.15.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.5-bioc/meat/GENE.E.Rcheck’
* using R Under development (unstable) (2016-09-29 r71410)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘GENE.E/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘GENE.E’ version ‘1.15.0’
* 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 ... NOTE
Found the following hidden files and directories:
.BBSoptions
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘GENE.E’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Packages listed in more than one of Depends, Imports, Suggests, Enhances:
‘rhdf5’ ‘RCurl’
A package should be listed in only one of these fields.
* 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
Namespaces in Imports field not imported from:
‘RCurl’ ‘rhdf5’
All declared Imports should be used.
Packages in Depends field not imported from:
‘RCurl’ ‘rhdf5’
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
from.genee: no visible global function definition for ‘download.file’
r2atr: no visible global function definition for ‘h5createGroup’
r2atr: no visible global function definition for ‘h5write’
read.gctx: no visible global function definition for ‘h5read’
read.meta: no visible global function definition for ‘h5read’
to.genee: no visible global function definition for ‘postForm’
to.genee: no visible global function definition for ‘fileUpload’
write.gctx: no visible global function definition for ‘h5createFile’
write.gctx: no visible global function definition for ‘h5createGroup’
write.gctx: no visible global function definition for ‘h5write’
write.meta: no visible global function definition for ‘h5write’
Undefined global functions or variables:
download.file fileUpload h5createFile h5createGroup h5read h5write
postForm
Consider adding
importFrom("utils", "download.file")
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 installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘runTests.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: 4 NOTEs
See
‘/home/biocbuild/bbs-3.5-bioc/meat/GENE.E.Rcheck/00check.log’
for details.