ppiData 0.12.0
Bioconductor Package Maintainer
| Snapshot Date: 2017-04-15 09:20:05 -0400 (Sat, 15 Apr 2017) | | URL: https://hedgehog.fhcrc.org/bioc-data/branches/RELEASE_3_4/experiment/pkgs/ppiData | | Last Changed Rev: 3958 / Revision: 4141 | | Last Changed Date: 2016-10-17 14:47:53 -0400 (Mon, 17 Oct 2016) |
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | [ WARNINGS ] | |  |
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### Running command:
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### /home/biocbuild/bbs-3.4-bioc/R/bin/R CMD check --no-vignettes --timings ppiData_0.12.0.tar.gz
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* using log directory ‘/home/biocbuild/bbs-3.4-data-experiment/meat/ppiData.Rcheck’
* using R version 3.3.3 (2017-03-06)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘ppiData/DESCRIPTION’ ... OK
* this is package ‘ppiData’ version ‘0.12.0’
* 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 ‘ppiData’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Title field: should not end in a period.
* 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 ... NOTE
Package in Depends field not imported from: ‘graph’
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
collectIntactPPIData: no visible binding for global variable ‘recover’
collectIntactPPIData: no visible global function definition for ‘data’
collectIntactPPIData: no visible binding for global variable
‘tableList’
collectIntactPPIData: no visible binding for global variable ‘sWAC2Sys’
collectIntactPPIData : <anonymous>: no visible binding for global
variable ‘tableList’
collectIntactPPIData : <anonymous> : <anonymous>: no visible binding
for global variable ‘tableList’
intAct2Sys: no visible binding for global variable ‘recover’
map2Systematic: no visible binding for global variable
‘org.Sc.sgdCOMMON2ORF’
map2Systematic: no visible binding for global variable
‘org.Sc.sgdALIAS’
map2Systematic: no visible binding for global variable
‘org.Sc.sgdREJECTORF’
Undefined global functions or variables:
data org.Sc.sgdALIAS org.Sc.sgdCOMMON2ORF org.Sc.sgdREJECTORF recover
sWAC2Sys tableList
Consider adding
importFrom("utils", "data", "recover")
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 ... WARNING
Warning: large data file saved inefficiently:
size ASCII compress
ppipred.rda 896Kb FALSE none
Note: significantly better compression could be obtained
by using R CMD build --resave-data
old_size new_size compress
Gavin2002BPGraph.rda 17Kb 10Kb xz
Gavin2006BPGraph.rda 50Kb 27Kb bzip2
Hazbun2003BPGraph.rda 20Kb 8Kb xz
Ho2002BPGraph.rda 19Kb 9Kb xz
Ito2001BPGraph.rda 33Kb 15Kb xz
ItoFull2001BPGraph.rda 33Kb 15Kb xz
Krogan2006BPGraph.rda 151Kb 84Kb bzip2
intActPPIData.rda 114Kb 63Kb xz
ppipred.rda 896Kb 86Kb xz
sWAC2Sys.rda 35Kb 18Kb xz
stochasticBaits.rda 31Kb 20Kb bzip2
tableList.rda 2.0Mb 783Kb xz
twTableAPMS.rda 24Kb 15Kb bzip2
viableBaits.rda 22Kb 14Kb xz
viablePrey.rda 47Kb 30Kb bzip2
y2h.rda 76Kb 47Kb bzip2
y2hSysGW.rda 71Kb 44Kb bzip2
* 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
collectIntactPPIData 6.996 0.02 7.017
* 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
‘/home/biocbuild/bbs-3.4-data-experiment/meat/ppiData.Rcheck/00check.log’
for details.