yeastCC 1.4.0
Sandrine Dudoit
| Snapshot Date: 2014-10-04 07:15:22 -0700 (Sat, 04 Oct 2014) | | URL: https://hedgehog.fhcrc.org/bioc-data/branches/RELEASE_2_14/experiment/pkgs/yeastCC | | Last Changed Rev: 2799 / Revision: 3055 | | Last Changed Date: 2014-04-11 14:27:08 -0700 (Fri, 11 Apr 2014) |
| zin2 | Linux (Ubuntu 12.04.4 LTS) / x86_64 | NotNeeded | OK | WARNINGS | |
| moscato2 | Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 | NotNeeded | OK | WARNINGS | OK |
| petty | Mac OS X Snow Leopard (10.6.8) / 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 --no-multiarch yeastCC_1.4.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-2.14-data-experiment/meat/yeastCC.Rcheck’
* using R version 3.1.1 (2014-07-10)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘yeastCC/DESCRIPTION’ ... OK
* this is package ‘yeastCC’ version ‘1.4.0’
* 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 ‘yeastCC’ can be installed ... [5s/5s] OK
* checking installed package size ... OK
* checking package 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 ... WARNING
Found directory ‘R’ with no source files.
* 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
Error in tools:::.check_packages_used(package = "yeastCC") :
directory '/Users/biocbuild/bbs-2.14-data-experiment/meat/yeastCC.Rcheck/yeastCC' does not contain R code
Execution halted
See the information on DESCRIPTION files in the chapter ‘Creating R
packages’ of the ‘Writing R Extensions’ manual.
* checking S3 generic/method consistency ... WARNING
Error in tools::checkS3methods(package = "yeastCC") :
directory '/Users/biocbuild/bbs-2.14-data-experiment/meat/yeastCC.Rcheck/yeastCC' does not contain R code
Execution halted
See section ‘Generic functions and methods’ of the ‘Writing R
Extensions’ manual.
* checking replacement functions ... WARNING
Error in tools::checkReplaceFuns(package = "yeastCC") :
directory '/Users/biocbuild/bbs-2.14-data-experiment/meat/yeastCC.Rcheck/yeastCC' does not contain R code
Execution halted
The argument of a replacement function which corresponds to the right
hand side must be named ‘value’.
* checking foreign function calls ... NOTE
Error in tools::checkFF(package = "yeastCC", registration = FALSE, check_DUP = TRUE) :
directory '/Users/biocbuild/bbs-2.14-data-experiment/meat/yeastCC.Rcheck/yeastCC' does not contain R code
Execution halted
See the chapter ‘System and foreign language interfaces’ of the
‘Writing R Extensions’ manual.
* 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 ... WARNING
Error in tools::codoc(package = "yeastCC") :
directory '/Users/biocbuild/bbs-2.14-data-experiment/meat/yeastCC.Rcheck/yeastCC' does not contain R code
Execution halted
Error in tools::codocClasses(package = "yeastCC") :
directory '/Users/biocbuild/bbs-2.14-data-experiment/meat/yeastCC.Rcheck/yeastCC' does not contain R code
Execution halted
* checking Rd \usage sections ... NOTE
Error in tools::checkDocStyle(package = "yeastCC") :
directory '/Users/biocbuild/bbs-2.14-data-experiment/meat/yeastCC.Rcheck/yeastCC' does not contain R code
Execution halted
The \usage entries for S3 methods should use the \method markup and not
their full name.
See the chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* 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
spYCCmeta.rda 430Kb FALSE none
Note: significantly better compression could be obtained
by using R CMD build --resave-data
old_size new_size compress
breeden.rda 1.9Mb 1.5Mb xz
spYCCES.rda 757Kb 483Kb xz
spYCCmeta.rda 430Kb 55Kb xz
yeastCC.rda 1.5Mb 485Kb xz
* checking files in ‘vignettes’ ... OK
* checking examples ... [2s/2s] OK
* checking PDF version of manual ... OK
WARNING: There were 5 warnings.
NOTE: There were 3 notes.
See
‘/Users/biocbuild/bbs-2.14-data-experiment/meat/yeastCC.Rcheck/00check.log’
for details.