BioC 2.14: CHECK report for impute on petty

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch impute_1.38.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-2.14-bioc/meat/impute.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 ‘impute/DESCRIPTION’ ... OK
* this is package ‘impute’ version ‘1.38.1’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘impute’ can be installed ... [3s/3s] 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 ... 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 ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* 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 ... 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 ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking compiled code ... OK
* checking examples ... [3s/3s] OK
* checking PDF version of manual ... OK

* installing *source* package ‘impute’ ...
** libs
gfortran-4.2 -arch x86_64   -fPIC  -g -O2 -Wall  -c knnimpute.f -o knnimpute.o
Warning: Nonconforming tab character in column 1 of line 89
Warning: Nonconforming tab character in column 1 of line 91
Warning: Nonconforming tab character in column 1 of line 92
Warning: Nonconforming tab character in column 1 of line 93
Warning: Nonconforming tab character in column 1 of line 94
Warning: Nonconforming tab character in column 1 of line 95
Warning: Nonconforming tab character in column 1 of line 96
Warning: Nonconforming tab character in column 1 of line 97
Warning: Nonconforming tab character in column 1 of line 98
Warning: Nonconforming tab character in column 1 of line 99
Warning: Nonconforming tab character in column 1 of line 100
Warning: Nonconforming tab character in column 1 of line 101
Warning: Nonconforming tab character in column 1 of line 102
Warning: Nonconforming tab character in column 1 of line 103
Warning: Nonconforming tab character in column 1 of line 104
Warning: Nonconforming tab character in column 1 of line 105
Warning: Nonconforming tab character in column 1 of line 106
Warning: Nonconforming tab character in column 1 of line 107
Warning: Nonconforming tab character in column 1 of line 108
Warning: Nonconforming tab character in column 1 of line 109
Warning: Nonconforming tab character in column 1 of line 110
Warning: Nonconforming tab character in column 1 of line 111
Warning: Nonconforming tab character in column 1 of line 112
Warning: Nonconforming tab character in column 1 of line 113
Warning: Nonconforming tab character in column 1 of line 114
Warning: Nonconforming tab character in column 1 of line 115
Warning: Nonconforming tab character in column 1 of line 116
Warning: Nonconforming tab character in column 1 of line 117
Warning: Nonconforming tab character in column 1 of line 118
Warning: Nonconforming tab character in column 1 of line 119
Warning: Nonconforming tab character in column 1 of line 120
Warning: Nonconforming tab character in column 1 of line 121
Warning: Nonconforming tab character in column 1 of line 122
knnimpute.f: In function ‘twomis’:
knnimpute.f:132: warning: ‘dold’ may be used uninitialized in this function
llvm-gcc-4.2 -arch x86_64 -std=gnu99 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -L/usr/local/lib -o impute.so knnimpute.o -L/usr/local/lib/gcc/i686-apple-darwin8/4.2.3/x86_64 -L/usr/local/lib/x86_64 -L/usr/local/lib/gcc/i686-apple-darwin8/4.2.3 -lgfortran -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.14-bioc/meat/impute.Rcheck/impute/libs
** R
** data
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** testing if installed package can be loaded
* DONE (impute)

name	user	system	elapsed
impute.knn	1.574	0.044	1.647
khanmiss	0.305	0.010	0.317

BioC 2.14: CHECK report for impute on petty

Summary

Command output