BioC experimental data: CHECK report for tinesath1probe on morelia

Package: tinesath1probe

Version: 1.9.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings tinesath1probe_1.9.0.tar.gz

StartedAt: 2015-11-25 11:24:24 -0800 (Wed, 25 Nov 2015)

EndedAt: 2015-11-25 11:25:50 -0800 (Wed, 25 Nov 2015)

EllapsedTime: 85.6 seconds

RetCode: 0

Status:  WARNINGS

CheckDir: tinesath1probe.Rcheck

Warnings: 5

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings tinesath1probe_1.9.0.tar.gz
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* using log directory ‘/Users/biocbuild/bbs-3.3-data-experiment/meat/tinesath1probe.Rcheck’
* using R Under development (unstable) (2015-11-08 r69614)
* using platform: x86_64-apple-darwin13.4.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘tinesath1probe/DESCRIPTION’ ... OK
* this is package ‘tinesath1probe’ version ‘1.9.0’
* 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 ‘tinesath1probe’ can be installed ... [3s/7s] 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 loading without being on the library search path ... OK
* checking dependencies in R code ... NOTE
Error in tools:::.check_packages_used(package = "tinesath1probe") : 
  directory '/Users/biocbuild/bbs-3.3-data-experiment/meat/tinesath1probe.Rcheck/tinesath1probe' does not contain R code
Execution halted
* checking S3 generic/method consistency ... WARNING
Error in tools::checkS3methods(package = "tinesath1probe") : 
  directory '/Users/biocbuild/bbs-3.3-data-experiment/meat/tinesath1probe.Rcheck/tinesath1probe' does not contain R code
Execution halted
See section ‘Generic functions and methods’ in the ‘Writing R
Extensions’ manual.
* checking replacement functions ... WARNING
Error in tools::checkReplaceFuns(package = "tinesath1probe") : 
  directory '/Users/biocbuild/bbs-3.3-data-experiment/meat/tinesath1probe.Rcheck/tinesath1probe' 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 = "tinesath1probe", registration = FALSE,  : 
  directory '/Users/biocbuild/bbs-3.3-data-experiment/meat/tinesath1probe.Rcheck/tinesath1probe' does not contain R code
Execution halted
See chapter ‘System and foreign language interfaces’ in 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 = "tinesath1probe") : 
  directory '/Users/biocbuild/bbs-3.3-data-experiment/meat/tinesath1probe.Rcheck/tinesath1probe' does not contain R code
Execution halted
Error in tools::codocClasses(package = "tinesath1probe") : 
  directory '/Users/biocbuild/bbs-3.3-data-experiment/meat/tinesath1probe.Rcheck/tinesath1probe' does not contain R code
Execution halted
* checking Rd \usage sections ... NOTE
Error in tools::checkDocStyle(package = "tinesath1probe") : 
  directory '/Users/biocbuild/bbs-3.3-data-experiment/meat/tinesath1probe.Rcheck/tinesath1probe' does not contain R code
Execution halted
The \usage entries for S3 methods should use the \method markup and not
their full name.
See 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
  
  Note: significantly better compression could be obtained
        by using R CMD build --resave-data
                     old_size new_size compress
  tinesath1probe.rda    3.5Mb    2.5Mb       xz
* checking examples ... [14s/15s] OK
Examples with CPU or elapsed time > 5s
                 user system elapsed
tinesath1probe 10.609  0.349  11.423
* checking PDF version of manual ... OK
* DONE

Status: 5 WARNINGs, 3 NOTEs
See
  ‘/Users/biocbuild/bbs-3.3-data-experiment/meat/tinesath1probe.Rcheck/00check.log’
for details.

* installing *source* package ‘tinesath1probe’ ...
** data
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded
* DONE (tinesath1probe)

name	user	system	elapsed
tinesath1probe	10.609	0.349	11.423