Package: multtest

Version: 2.16.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch multtest_2.16.0.tar.gz

StartedAt: 2013-05-01 08:34:28 -0700 (Wed, 01 May 2013)

EndedAt: 2013-05-01 08:36:23 -0700 (Wed, 01 May 2013)

EllapsedTime: 115.0 seconds

RetCode: 0

Status:  OK

CheckDir: multtest.Rcheck

Warnings: 0

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/multtest.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 'multtest/DESCRIPTION' ... OK
* this is package 'multtest' version '2.16.0'
* 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 'multtest' can be installed ... [8s/8s] 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 ... 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 compilation flags in Makevars ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking compiled code ... NOTE
File '/Users/biocbuild/bbs-2.12-bioc/meat/multtest.Rcheck/multtest/libs/multtest.so':
  Found '___stderrp', possibly from 'stderr' (C)
    Objects: 'Rpack.o', 'block_sampling_fixed.o', 'mt.o',
      'pairt_sampling.o', 'pairt_sampling_fixed.o', 'sampling.o',
      'sampling_fixed.o', 'stat_func.o'

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console.

See 'Writing portable packages' in the 'Writing R Extensions' manual.
* checking installed files from 'inst/doc' ... NOTE
The following files should probably not be installed:
  'MTP.tex'

Consider the use of a .Rinstignore file: see 'Writing R Extensions',
or move the vignette sources from 'inst/doc' to 'vignettes'.
* checking examples ... [34s/34s] OK
Examples with CPU or elapsed time > 5s
             user system elapsed
mt.maxT    17.551  0.088  17.809
fwer2gfwer  4.930  0.033   5.036
* checking PDF version of manual ... OK

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

* installing *source* package 'multtest' ...
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include   -DUSEDOUBLE -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c Rpack.c -o Rpack.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include   -DUSEDOUBLE -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c VScount.c -o VScount.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include   -DUSEDOUBLE -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c block_sampling_fixed.c -o block_sampling_fixed.o
block_sampling_fixed.c:57:30: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy(l_L,L,sizeof(int)*n);
                            ˜^
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
block_sampling_fixed.c:57:30: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy(l_L,L,sizeof(int)*n);
                            ˜^
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
block_sampling_fixed.c:74:40: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy(L,l_order_block,sizeof(int)*l_n);
                                      ˜^˜˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
block_sampling_fixed.c:74:40: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy(L,l_order_block,sizeof(int)*l_n);
                                      ˜^˜˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
block_sampling_fixed.c:87:30: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy(L,l_L,sizeof(int)*l_n);
                            ˜^˜˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
block_sampling_fixed.c:87:30: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy(L,l_L,sizeof(int)*l_n);
                            ˜^˜˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, 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 bootloop.c -o bootloop.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include   -DUSEDOUBLE -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c mt.c -o mt.o
mt.c:65:33: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(pdata->L,0,sizeof(int)*ncol);
                               ˜^˜˜˜
/usr/include/secure/_string.h:74:41: note: expanded from macro 'memset'
   ? __builtin___memset_chk (dest, val, len, __darwin_obsz0 (dest))     \
                                        ^
mt.c:65:33: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(pdata->L,0,sizeof(int)*ncol);
                               ˜^˜˜˜
/usr/include/secure/_string.h:75:38: note: expanded from macro 'memset'
   : __inline_memset_chk (dest, val, len))
                                     ^
mt.c:148:32: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(count,0,sizeof(float)*nrow);
                              ˜^˜˜˜
/usr/include/secure/_string.h:74:41: note: expanded from macro 'memset'
   ? __builtin___memset_chk (dest, val, len, __darwin_obsz0 (dest))     \
                                        ^
mt.c:148:32: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(count,0,sizeof(float)*nrow);
                              ˜^˜˜˜
/usr/include/secure/_string.h:75:38: note: expanded from macro 'memset'
   : __inline_memset_chk (dest, val, len))
                                     ^
mt.c:150:30: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(total,0,sizeof(int)*nrow);
                            ˜^˜˜˜
/usr/include/secure/_string.h:74:41: note: expanded from macro 'memset'
   ? __builtin___memset_chk (dest, val, len, __darwin_obsz0 (dest))     \
                                        ^
mt.c:150:30: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(total,0,sizeof(int)*nrow);
                            ˜^˜˜˜
/usr/include/secure/_string.h:75:38: note: expanded from macro 'memset'
   : __inline_memset_chk (dest, val, len))
                                     ^
mt.c:484:33: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(count1,0,sizeof(float)*nrow);
                               ˜^˜˜˜
/usr/include/secure/_string.h:74:41: note: expanded from macro 'memset'
   ? __builtin___memset_chk (dest, val, len, __darwin_obsz0 (dest))     \
                                        ^
mt.c:484:33: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(count1,0,sizeof(float)*nrow);
                               ˜^˜˜˜
/usr/include/secure/_string.h:75:38: note: expanded from macro 'memset'
   : __inline_memset_chk (dest, val, len))
                                     ^
mt.c:486:31: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(total1,0,sizeof(int)*nrow);
                             ˜^˜˜˜
/usr/include/secure/_string.h:74:41: note: expanded from macro 'memset'
   ? __builtin___memset_chk (dest, val, len, __darwin_obsz0 (dest))     \
                                        ^
mt.c:486:31: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(total1,0,sizeof(int)*nrow);
                             ˜^˜˜˜
/usr/include/secure/_string.h:75:38: note: expanded from macro 'memset'
   : __inline_memset_chk (dest, val, len))
                                     ^
mt.c:488:33: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(count2,0,sizeof(float)*nrow);
                               ˜^˜˜˜
/usr/include/secure/_string.h:74:41: note: expanded from macro 'memset'
   ? __builtin___memset_chk (dest, val, len, __darwin_obsz0 (dest))     \
                                        ^
mt.c:488:33: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(count2,0,sizeof(float)*nrow);
                               ˜^˜˜˜
/usr/include/secure/_string.h:75:38: note: expanded from macro 'memset'
   : __inline_memset_chk (dest, val, len))
                                     ^
mt.c:490:31: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(total2,0,sizeof(int)*nrow);
                             ˜^˜˜˜
/usr/include/secure/_string.h:74:41: note: expanded from macro 'memset'
   ? __builtin___memset_chk (dest, val, len, __darwin_obsz0 (dest))     \
                                        ^
mt.c:490:31: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(total2,0,sizeof(int)*nrow);
                             ˜^˜˜˜
/usr/include/secure/_string.h:75:38: note: expanded from macro 'memset'
   : __inline_memset_chk (dest, val, len))
                                     ^
14 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 pairt_sampling.c -o pairt_sampling.o
pairt_sampling.c:25:9: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
  l_len=floor(log(imax+1.0)/log(2));
       ˜^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
pairt_sampling.c:26:8: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
  l_sz=ceil(n/(l_len*1.0));
      ˜^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
pairt_sampling.c:127:35: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(L,0,sizeof(unsigned int)*n);
                                 ˜^
/usr/include/secure/_string.h:74:41: note: expanded from macro 'memset'
   ? __builtin___memset_chk (dest, val, len, __darwin_obsz0 (dest))     \
                                        ^
pairt_sampling.c:127:35: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(L,0,sizeof(unsigned int)*n);
                                 ˜^
/usr/include/secure/_string.h:75:38: note: expanded from macro 'memset'
   : __inline_memset_chk (dest, val, len))
                                     ^
4 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 pairt_sampling_fixed.c -o pairt_sampling_fixed.o
pairt_sampling_fixed.c:21:28: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memcpy(l_L,L,sizeof(int)*n);
                          ˜^
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
pairt_sampling_fixed.c:21:28: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memcpy(l_L,L,sizeof(int)*n);
                          ˜^
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
pairt_sampling_fixed.c:35:30: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy(L,l_L,sizeof(int)*l_n);
                            ˜^˜˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
pairt_sampling_fixed.c:35:30: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy(L,l_L,sizeof(int)*l_n);
                            ˜^˜˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
4 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 random.c -o random.o
random.c:48:10: warning: implicit conversion loses integer precision: 'long' to 'int' [-Wshorten-64-to-32]
  z1=abs(seed); /*setting the seed to z1 and initialize it*/
     ˜˜˜ ^˜˜˜
random.c:83:6: warning: implicit conversion loses integer precision: 'long' to 'int' [-Wshorten-64-to-32]
  i=y/N_DIV; /*N_DIV=(1+P1/N_SHUFF);to make sure i to be 0..N_SHUFF-1*/
   ˜˜^˜˜˜˜˜
random.c:109:10: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
      j=i+floor(f);
       ˜˜^˜˜˜˜˜˜˜˜
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 sampling.c -o sampling.o
sampling.c:91:40: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
      memcpy(permun,ordern,sizeof(int)*n);
                                      ˜^
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
sampling.c:91:40: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
      memcpy(permun,ordern,sizeof(int)*n);
                                      ˜^
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
sampling.c:157:35: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(pa->nk,0,sizeof(int)*pa->k);
                             ˜˜˜˜˜^
/usr/include/secure/_string.h:74:41: note: expanded from macro 'memset'
   ? __builtin___memset_chk (dest, val, len, __darwin_obsz0 (dest))     \
                                        ^
sampling.c:157:35: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(pa->nk,0,sizeof(int)*pa->k);
                             ˜˜˜˜˜^
/usr/include/secure/_string.h:75:38: note: expanded from macro 'memset'
   : __inline_memset_chk (dest, val, len))
                                     ^
sampling.c:162:8: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
  imax=˜0; /*get all bits are 1 for the integars*/
      ˜^˜
sampling.c:163:11: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
  pa->len=floor(log(imax+1.0)/log(pa->k)); 
         ˜^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
sampling.c:164:10: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
  pa->sz=ceil(n/(pa->len*1.0));
        ˜^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
sampling.c:176:39: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(L,0,sizeof(unsigned int)*pa->n);
                                 ˜˜˜˜˜^
/usr/include/secure/_string.h:74:41: note: expanded from macro 'memset'
   ? __builtin___memset_chk (dest, val, len, __darwin_obsz0 (dest))     \
                                        ^
sampling.c:176:39: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(L,0,sizeof(unsigned int)*pa->n);
                                 ˜˜˜˜˜^
/usr/include/secure/_string.h:75:38: note: expanded from macro 'memset'
   : __inline_memset_chk (dest, val, len))
                                     ^
sampling.c:183:15: warning: implicit conversion changes signedness: 'unsigned int' to 'int' [-Wsign-conversion]
      L[i]=val%(unsigned int)(pa->k);
          ˜˜˜˜^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
10 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 sampling_fixed.c -o sampling_fixed.o
sampling_fixed.c:27:28: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memcpy(l_L,L,sizeof(int)*n);
                          ˜^
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
sampling_fixed.c:27:28: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memcpy(l_L,L,sizeof(int)*n);
                          ˜^
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
sampling_fixed.c:36:29: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(l_nk,0,sizeof(int)*k);
                           ˜^
/usr/include/secure/_string.h:74:41: note: expanded from macro 'memset'
   ? __builtin___memset_chk (dest, val, len, __darwin_obsz0 (dest))     \
                                        ^
sampling_fixed.c:36:29: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memset(l_nk,0,sizeof(int)*k);
                           ˜^
/usr/include/secure/_string.h:75:38: note: expanded from macro 'memset'
   : __inline_memset_chk (dest, val, len))
                                     ^
sampling_fixed.c:63:30: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy(L,l_L,sizeof(int)*l_n);
                            ˜^˜˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
sampling_fixed.c:63:30: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy(L,l_L,sizeof(int)*l_n);
                            ˜^˜˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
sampling_fixed.c:74:40: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memcpy(l_permun,l_ordern,sizeof(int)*n);
                                      ˜^
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
sampling_fixed.c:74:40: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memcpy(l_permun,l_ordern,sizeof(int)*n);
                                      ˜^
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
8 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 stat_func.c -o stat_func.o
stat_func.c:552:34: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy(tempV,B,sizeof(int)*(n-k));
                              ˜ ˜^˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
stat_func.c:552:34: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy(tempV,B,sizeof(int)*(n-k));
                              ˜ ˜^˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
stat_func.c:553:38: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy(tempV+(n-k),A,sizeof(int)*k);
                                    ˜^
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
stat_func.c:553:38: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy(tempV+(n-k),A,sizeof(int)*k);
                                    ˜^
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
stat_func.c:555:32: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy(V,tempV,sizeof(int)*n);
                              ˜^
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
stat_func.c:555:32: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy(V,tempV,sizeof(int)*n);
                              ˜^
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
stat_func.c:568:30: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memcpy(tempV,A,sizeof(int)*i);
                            ˜^
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
stat_func.c:568:30: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memcpy(tempV,A,sizeof(int)*i);
                            ˜^
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
stat_func.c:571:36: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy(tempV+k,B,sizeof(int)*(j+1));
                                ˜ ˜^˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
stat_func.c:571:36: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy(tempV+k,B,sizeof(int)*(j+1));
                                ˜ ˜^˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
stat_func.c:578:39: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memcpy(cpyV,B+j+1,sizeof(int)*((n-k)-(j+1)));
                               ˜ ˜˜˜˜˜^˜˜˜˜˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
stat_func.c:578:39: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memcpy(cpyV,B+j+1,sizeof(int)*((n-k)-(j+1)));
                               ˜ ˜˜˜˜˜^˜˜˜˜˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
stat_func.c:580:49: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy(cpyV+(n-k)-(j+1),A+i+1,sizeof(int)*(k-(i+1)));
                                             ˜ ˜^˜˜˜˜˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
stat_func.c:580:49: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy(cpyV+(n-k)-(j+1),A+i+1,sizeof(int)*(k-(i+1)));
                                             ˜ ˜^˜˜˜˜˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
stat_func.c:581:37: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memcpy(tempV+i,cpyV,sizeof(int)*(k-i));
                                 ˜ ˜^˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
stat_func.c:581:37: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memcpy(tempV+i,cpyV,sizeof(int)*(k-i));
                                 ˜ ˜^˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
stat_func.c:584:53: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy(tempV+k+j+2,cpyV+(k-i),sizeof(int)*((n-k)-(j+2)));
                                             ˜ ˜˜˜˜˜^˜˜˜˜˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
stat_func.c:584:53: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy(tempV+k+j+2,cpyV+(k-i),sizeof(int)*((n-k)-(j+2)));
                                             ˜ ˜˜˜˜˜^˜˜˜˜˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
stat_func.c:586:30: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memcpy(V,tempV,sizeof(int)*n);
                            ˜^
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
stat_func.c:586:30: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memcpy(V,tempV,sizeof(int)*n);
                            ˜^
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
stat_func.c:646:29: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memcpy(cpyV,V,sizeof(int)*n);
                           ˜^
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
stat_func.c:646:29: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memcpy(cpyV,V,sizeof(int)*n);
                           ˜^
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
22 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 stat_order.c -o stat_order.o
stat_order.c:65:11: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  qsort(R,n,sizeof(R[0]),cmp_mult);
  ˜˜˜˜˜   ^
stat_order.c:75:11: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  qsort(R,n,sizeof(R[0]),func_cmp);
  ˜˜˜˜˜   ^
2 warnings generated.
clang -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/usr/local/lib -L/usr/local/lib -o multtest.so Rpack.o VScount.o block_sampling_fixed.o bootloop.o mt.o pairt_sampling.o pairt_sampling_fixed.o random.o sampling.o sampling_fixed.o stat_func.o stat_order.o -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.12-bioc/meat/multtest.Rcheck/multtest/libs
** R
** data
** inst
** preparing package for lazy loading
Creating a generic function for 'as.list' from package 'base' in package 'multtest'
Creating a generic function for 'update' from package 'stats' in package 'multtest'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (multtest)

name	user	system	elapsed
EBMTP-class	0.008	0.003	0.011
EBMTP	0.328	0.013	0.353
Hsets	0.333	0.013	0.349
MTP-class	0.007	0.000	0.008
MTP	0.649	0.011	0.685
boot.null	0.151	0.006	0.159
corr.null	0.060	0.007	0.067
fwer2gfwer	4.930	0.033	5.036
get.index	1.413	0.016	1.462
meanX	0.137	0.005	0.143
mt.maxT	17.551	0.088	17.809
mt.plot	1.677	0.025	1.725
mt.rawp2adjp	1.456	0.014	1.481
mt.reject	1.456	0.013	1.483
mt.sample.teststat	0.246	0.016	0.265
mt.teststat	0.345	0.042	0.449
ss.maxT	0.006	0.001	0.006
wapply	0.010	0.001	0.011