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BioC experimental data: CHECK report for tinesath1probe on moscato1

This page was generated on 2015-04-08 17:40:58 -0700 (Wed, 08 Apr 2015).

Package 209/219HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
tinesath1probe 1.3.1
Tine Casneuf
Snapshot Date: 2015-04-08 06:15:26 -0700 (Wed, 08 Apr 2015)
URL: https://hedgehog.fhcrc.org/bioc-data/branches/RELEASE_3_0/experiment/pkgs/tinesath1probe
Last Changed Rev: 3075 / Revision: 3266
Last Changed Date: 2014-10-13 14:52:40 -0700 (Mon, 13 Oct 2014)
zin1 Linux (Ubuntu 12.04.4 LTS) / x86_64  NotNeeded  OK  WARNINGS 
moscato1 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  NotNeeded  OK [ WARNINGS ] OK 
perceval Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  WARNINGS  OK 

Summary

Package: tinesath1probe
Version: 1.3.1
Command: rm -rf tinesath1probe.buildbin-libdir tinesath1probe.Rcheck && mkdir tinesath1probe.buildbin-libdir tinesath1probe.Rcheck && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=tinesath1probe.buildbin-libdir tinesath1probe_1.3.1.tar.gz >tinesath1probe.Rcheck\00install.out 2>&1 && cp tinesath1probe.Rcheck\00install.out tinesath1probe-install.out && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD check --library=tinesath1probe.buildbin-libdir --install="check:tinesath1probe-install.out" --force-multiarch --no-vignettes --timings tinesath1probe_1.3.1.tar.gz
StartedAt: 2015-04-08 11:58:47 -0700 (Wed, 08 Apr 2015)
EndedAt: 2015-04-08 12:01:44 -0700 (Wed, 08 Apr 2015)
EllapsedTime: 177.4 seconds
RetCode: 0
Status:  WARNINGS  
CheckDir: tinesath1probe.Rcheck
Warnings: 5

Command output

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###
### Running command:
###
###   rm -rf tinesath1probe.buildbin-libdir tinesath1probe.Rcheck && mkdir tinesath1probe.buildbin-libdir tinesath1probe.Rcheck && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=tinesath1probe.buildbin-libdir tinesath1probe_1.3.1.tar.gz >tinesath1probe.Rcheck\00install.out 2>&1 && cp tinesath1probe.Rcheck\00install.out tinesath1probe-install.out  && D:\biocbld\bbs-3.0-bioc\R\bin\R.exe CMD check --library=tinesath1probe.buildbin-libdir --install="check:tinesath1probe-install.out" --force-multiarch --no-vignettes --timings tinesath1probe_1.3.1.tar.gz
###
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##############################################################################


* using log directory 'D:/biocbld/bbs-3.0-data-experiment/meat/tinesath1probe.Rcheck'
* using R version 3.1.3 (2015-03-09)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'tinesath1probe/DESCRIPTION' ... OK
* this is package 'tinesath1probe' version '1.3.1'
* 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 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
* loading checks for arch 'i386'
** 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
* loading checks for arch 'x64'
** 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 'D:/biocbld/bbs-3.0-data-experiment/meat/tinesath1probe.buildbin-libdir/tinesath1probe' does not contain R code
Execution halted
* checking S3 generic/method consistency ... WARNING
Error in tools::checkS3methods(package = "tinesath1probe") : 
  directory 'D:/biocbld/bbs-3.0-data-experiment/meat/tinesath1probe.buildbin-libdir/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 'D:/biocbld/bbs-3.0-data-experiment/meat/tinesath1probe.buildbin-libdir/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 'D:/biocbld/bbs-3.0-data-experiment/meat/tinesath1probe.buildbin-libdir/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 'D:/biocbld/bbs-3.0-data-experiment/meat/tinesath1probe.buildbin-libdir/tinesath1probe' does not contain R code
Execution halted
Error in tools::codocClasses(package = "tinesath1probe") : 
  directory 'D:/biocbld/bbs-3.0-data-experiment/meat/tinesath1probe.buildbin-libdir/tinesath1probe' does not contain R code
Execution halted
* checking Rd \usage sections ... NOTE
Error in tools::checkDocStyle(package = "tinesath1probe") : 
  directory 'D:/biocbld/bbs-3.0-data-experiment/meat/tinesath1probe.buildbin-libdir/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 ...
** running examples for arch 'i386' ... [18s] OK
Examples with CPU or elapsed time > 5s
               user system elapsed
tinesath1probe 4.58   0.15    14.1
** running examples for arch 'x64' ... [12s] OK
Examples with CPU or elapsed time > 5s
               user system elapsed
tinesath1probe 6.02   0.14    6.18
* checking PDF version of manual ... OK
* DONE

WARNING: There were 5 warnings.
NOTE: There were 3 notes.
See
  'D:/biocbld/bbs-3.0-data-experiment/meat/tinesath1probe.Rcheck/00check.log'
for details.

tinesath1probe.Rcheck/00install.out:


install for i386

* installing *source* package 'tinesath1probe' ...
** data
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded

install for x64

* installing *source* package 'tinesath1probe' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'tinesath1probe' as tinesath1probe_1.3.1.zip
* DONE (tinesath1probe)

tinesath1probe.Rcheck/examples_i386/tinesath1probe-Ex.timings:

nameusersystemelapsed
tinesath1probe 4.58 0.1514.10

tinesath1probe.Rcheck/examples_x64/tinesath1probe-Ex.timings:

nameusersystemelapsed
tinesath1probe6.020.146.18