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Package 402/671HostnameOS / ArchBUILDCHECKBUILD BIN
metaArray 1.38.0
Hyungwon Choi
Snapshot Date: 2013-04-30 17:01:37 -0700 (Tue, 30 Apr 2013)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_12/madman/Rpacks/metaArray
Last Changed Rev: 75263 / Revision: 76155
Last Changed Date: 2013-04-03 14:32:27 -0700 (Wed, 03 Apr 2013)
george2 Linux (Ubuntu 12.04.1 LTS) / x86_64  OK  OK 
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64  OK  OK  OK 
petty Mac OS X Snow Leopard (10.6.8) / x86_64  OK  OK  OK 
pelham Mac OS X Snow Leopard (10.6.8) / x86_64  OK [ OK ] OK 

Summary

Package: metaArray
Version: 1.38.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch metaArray_1.38.0.tar.gz
StartedAt: 2013-05-01 07:50:30 -0700 (Wed, 01 May 2013)
EndedAt: 2013-05-01 07:51:24 -0700 (Wed, 01 May 2013)
EllapsedTime: 53.8 seconds
RetCode: 0
Status:  OK 
CheckDir: metaArray.Rcheck
Warnings: 0

Command output

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/metaArray.Rcheck'
* using R version 3.0.0 Patched (2013-04-08 r62531)
* using platform: x86_64-apple-darwin10.8.0 (64-bit)
* using session charset: ASCII
* using option '--no-vignettes'
* checking for file 'metaArray/DESCRIPTION' ... OK
* this is package 'metaArray' version '1.38.0'
* 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 'metaArray' can be installed ... [5s/6s] 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 for unstated 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 ... NOTE
poe.mcmc: no visible binding for global variable 'R0'
* checking Rd files ... NOTE
prepare_Rd: em.draw.Rd:28-30: Dropping empty section \examples
prepare_Rd: find.init.Rd:20-21: Dropping empty section \examples
prepare_Rd: fit.em.Rd:31-33: Dropping empty section \examples
prepare_Rd: poe.em.Rd:22: Dropping empty section \examples
* 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 compilation flags in Makevars ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking compiled code ... OK
* checking installed files from 'inst/doc' ... OK
* checking examples ... [2s/2s] OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK

NOTE: There were 2 notes.
See
  '/Users/biocbuild/bbs-2.12-bioc/meat/metaArray.Rcheck/00check.log'
for details.

metaArray.Rcheck/00install.out:

* installing *source* package 'metaArray' ...
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include   -DUSEDOUBLE -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c contr.c -o contr.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include   -DUSEDOUBLE -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c dproc.c -o dproc.o
dproc.c:33:38: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(expr->label, 0, sizeof(int)*nc);
                                    ˜^˜
/usr/include/secure/_string.h:74:41: note: expanded from macro 'memset'
   ? __builtin___memset_chk (dest, val, len, __darwin_obsz0 (dest))     \
                                        ^
dproc.c:33:38: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(expr->label, 0, sizeof(int)*nc);
                                    ˜^˜
/usr/include/secure/_string.h:75:38: note: expanded from macro 'memset'
   : __inline_memset_chk (dest, val, len))
                                     ^
dproc.c:192:16: warning: unused variable 'nc' [-Wunused-variable]
  int num, nr, nc;
               ^
3 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include   -DUSEDOUBLE -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c dproc2.c -o dproc2.o
dproc2.c:155:34: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(ys, 0.0, sizeof(double)*len);
                                ˜^˜˜
/usr/include/secure/_string.h:74:41: note: expanded from macro 'memset'
   ? __builtin___memset_chk (dest, val, len, __darwin_obsz0 (dest))     \
                                        ^
dproc2.c:155:34: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(ys, 0.0, sizeof(double)*len);
                                ˜^˜˜
/usr/include/secure/_string.h:75:38: note: expanded from macro 'memset'
   : __inline_memset_chk (dest, val, len))
                                     ^
dproc2.c:156:34: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(rw, 0.0, sizeof(double)*len);
                                ˜^˜˜
/usr/include/secure/_string.h:74:41: note: expanded from macro 'memset'
   ? __builtin___memset_chk (dest, val, len, __darwin_obsz0 (dest))     \
                                        ^
dproc2.c:156:34: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(rw, 0.0, sizeof(double)*len);
                                ˜^˜˜
/usr/include/secure/_string.h:75:38: note: expanded from macro 'memset'
   : __inline_memset_chk (dest, val, len))
                                     ^
dproc2.c:157:35: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(res, 0.0, sizeof(double)*len); 
                                 ˜^˜˜
/usr/include/secure/_string.h:74:41: note: expanded from macro 'memset'
   ? __builtin___memset_chk (dest, val, len, __darwin_obsz0 (dest))     \
                                        ^
dproc2.c:157:35: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(res, 0.0, sizeof(double)*len); 
                                 ˜^˜˜
/usr/include/secure/_string.h:75:38: note: expanded from macro 'memset'
   : __inline_memset_chk (dest, val, len))
                                     ^
6 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include   -DUSEDOUBLE -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c intcor.c -o intcor.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include   -DUSEDOUBLE -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c lowess.c -o lowess.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include   -DUSEDOUBLE -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c mmath.c -o mmath.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include   -DUSEDOUBLE -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c perm.c -o perm.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include   -DUSEDOUBLE -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c poe.c -o poe.o
clang -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -L/usr/local/lib -o metaArray.so contr.o dproc.o dproc2.o intcor.o lowess.o mmath.o perm.o poe.o -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.12-bioc/meat/metaArray.Rcheck/metaArray/libs
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (metaArray)

metaArray.Rcheck/metaArray-Ex.timings:

nameusersystemelapsed
Zscore0.0060.0010.007
intcor0.0070.0010.008
poe.mcmc0.0070.0010.008