Package: reb

Version: 1.11.1

Command: E:\biocbld\bbs-2.1-bioc\R\bin\R.exe CMD check reb_1.11.1.tar.gz

RetCode: 0

Time: 102.5 seconds

Status: WARNINGS

CheckDir: reb.Rcheck

Warnings: 1

* checking for working latex ... OK
* using log directory 'E:/biocbld/bbs-2.1-bioc/meat/reb.Rcheck'
* using R version 2.6.0 Under development (unstable) (2007-08-06 r42439)
* checking for file 'reb/DESCRIPTION' ... OK
* this is package 'reb' version '1.11.1'
* checking package name space information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking whether package 'reb' can be installed ... OK
* checking package directory ... OK
* checking for portable file names ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level 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 name space can be loaded with stated dependencies ... OK
* checking for unstated dependencies in R code ... OK
* checking S3 generic/method consistency ... WARNING
t:
  function(x)
t.binom.test:
  function(x, trim)

See section 'Generic functions and methods' of the 'Writing R Extensions'
manual.
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking data for non-ASCII characters ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking for portable use of $BLAS_LIBS ... OK
* creating reb-Ex.R ... OK
* checking examples ... OK
* checking package vignettes in 'inst/doc' ... OK
* creating reb-manual.tex ... OK
* checking reb-manual.tex ... OK

WARNING: There was 1 warning, see
  E:/biocbld/bbs-2.1-bioc/meat/reb.Rcheck/00check.log
for details

installing R.css in E:/biocbld/bbs-2.1-bioc/meat/reb.Rcheck


---------- Making package reb ------------
  adding build stamp to DESCRIPTION
  installing NAMESPACE file and metadata
  making DLL ...
making movbin.d from movbin.c
gcc   -Ie:/biocbld/bbs-2.1-bioc/R/include  -Wall -O3 -std=gnu99   -c movbin.c -o movbin.o
movbin.c: In function `bcount':
movbin.c:37: warning: suggest parentheses around comparison in operand of &
movbin.c: In function `bscore':
movbin.c:48: warning: implicit declaration of function `sqrt'
movbin.c: In function `mean':
movbin.c:63: warning: suggest parentheses around comparison in operand of &
movbin.c: In function `mspan_mov_binom_mx':
movbin.c:128: warning: unused variable `im_mx'
movbin.c: In function `mspan_mov_binom':
movbin.c:145: warning: unused variable `r'
movbin.c:145: warning: unused variable `c'
movbin.c: In function `main':
movbin.c:158: warning: unused variable `data'
movbin.c:160: warning: unused variable `gx2'
movbin.c:161: warning: unused variable `im_vec'
movbin.c:161: warning: unused variable `im_mx'
movbin.c:162: warning: unused variable `sum_vec'
movbin.c:162: warning: unused variable `sum_mx'
movbin.c:163: warning: unused variable `range'
movbin.c:166: warning: unused variable `rlen'
movbin.c:168: warning: unused variable `nr'
windres -I e:/biocbld/bbs-2.1-bioc/R/include  -i reb_res.rc -o reb_res.o
gcc  -shared -s  -o reb.dll reb.def movbin.o reb_res.o  -Le:/biocbld/bbs-2.1-bioc/R/bin    -lR
  ... DLL made
  installing DLL
  installing R files
  installing inst files
  installing data files
  installing man source files
  installing indices
  not zipping data
  installing help
Note: unmatched right brace in 'regmap' on or after line 15
Note: unmatched right brace in 'regmap.Rd' on or after line 15
 >>> Building/Updating help pages for package 'reb'
     Formats: text html latex example chm 
  Hs.arms                           text    html    latex           chm
  absMax                            text    html    latex   example chm
  buildChromCytoband                text    html    latex   example chm
  buildChromMap                     text    html    latex   example chm
  cset2band                         text    html    latex   example chm
  fromRevIsh                        text    html    latex   example chm
  isAbnormal                        text    html    latex   example chm
  mcr.eset                          text    html    latex   example chm
  movbin                            text    html    latex   example chm
  movt                              text    html    latex   example chm
  naMean                            text    html    latex   example chm
  regmap                            text    html    latex   example chm
  revish                            text    html    latex   example chm
  rmAmbigMappings                   text    html    latex   example chm
  smoothByRegion                    text    html    latex   example chm
  summarizeByRegion                 text    html    latex   example chm
  t.binom.test                      text    html    latex   example chm
  writeGFF3                         text    html    latex   example chm
Microsoft HTML Help Compiler 4.74.8702

Compiling e:\biocbld\bbs-2.1-bioc\meat\reb.Rcheck\00_pkg_src\reb\chm\reb.chm


Compile time: 0 minutes, 0 seconds
19	Topics
51	Local links
0	Internet links
1	Graphic


Created e:\biocbld\bbs-2.1-bioc\meat\reb.Rcheck\00_pkg_src\reb\chm\reb.chm, 39,578 bytes
Compression decreased file by 22,895 bytes.
  adding MD5 sums

* DONE (reb)