BioC experimental data: CHECK report for tinesath1probe on zin1

Package: tinesath1probe

Version: 1.11.0

Command: /home/biocbuild/bbs-3.4-bioc/R/bin/R CMD check --no-vignettes --timings tinesath1probe_1.11.0.tar.gz

StartedAt: 2016-09-17 12:37:52 -0700 (Sat, 17 Sep 2016)

EndedAt: 2016-09-17 12:38:44 -0700 (Sat, 17 Sep 2016)

EllapsedTime: 52.3 seconds

RetCode: 0

Status:  WARNINGS

CheckDir: tinesath1probe.Rcheck

Warnings: 5

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.4-bioc/R/bin/R CMD check --no-vignettes --timings tinesath1probe_1.11.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.4-data-experiment/meat/tinesath1probe.Rcheck’
* using R version 3.3.1 (2016-06-21)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘tinesath1probe/DESCRIPTION’ ... OK
* this is package ‘tinesath1probe’ version ‘1.11.0’
* 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 ... 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 '/home/biocbuild/bbs-3.4-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 '/home/biocbuild/bbs-3.4-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 '/home/biocbuild/bbs-3.4-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 '/home/biocbuild/bbs-3.4-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 '/home/biocbuild/bbs-3.4-data-experiment/meat/tinesath1probe.Rcheck/tinesath1probe' does not contain R code
Execution halted
Error in tools::codocClasses(package = "tinesath1probe") : 
  directory '/home/biocbuild/bbs-3.4-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 '/home/biocbuild/bbs-3.4-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 ... OK
Examples with CPU or elapsed time > 5s
                user system elapsed
tinesath1probe 4.852  0.192   5.044
* checking PDF version of manual ... OK
* DONE

Status: 5 WARNINGs, 3 NOTEs
See
  ‘/home/biocbuild/bbs-3.4-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	4.852	0.192	5.044