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Package 98/671HostnameOS / ArchBUILDCHECKBUILD BIN
cancerclass 1.4.0
Daniel Kosztyla
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/cancerclass
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: cancerclass
Version: 1.4.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch cancerclass_1.4.0.tar.gz
StartedAt: 2013-05-01 03:17:20 -0700 (Wed, 01 May 2013)
EndedAt: 2013-05-01 03:19:40 -0700 (Wed, 01 May 2013)
EllapsedTime: 139.8 seconds
RetCode: 0
Status:  OK 
CheckDir: cancerclass.Rcheck
Warnings: 0

Command output

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/cancerclass.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 'cancerclass/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'cancerclass' version '1.4.0'
* 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 'cancerclass' can be installed ... [6s/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
File 'cancerclass/R/cancerclass-internal.R':
  .onLoad calls:
    require(methods)

Package startup functions should not change the search path.
See section 'Good practice' in '?.onAttach'.

get.prop: warning in binom.confint(n, m + n, method = ci, conf.level =
  conf.level): partial argument match of 'method' to 'methods'
* 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 installed files from 'inst/doc' ... OK
* checking examples ... [80s/81s] OK
Examples with CPU or elapsed time > 5s
        user system elapsed
GOLUB 74.777  2.582  78.968
* 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 was 1 note.
See
  '/Users/biocbuild/bbs-2.12-bioc/meat/cancerclass.Rcheck/00check.log'
for details.

cancerclass.Rcheck/00install.out:

* installing *source* package 'cancerclass' ...
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c copa.c -o copa.o
copa.c:28:23: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
   int nsamples = *ng1+*ng2;    //ok
       ˜˜˜˜˜˜˜˜   ˜˜˜˜^˜˜˜˜
copa.c:48:35: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         q1 = quantile7( values, (*ng1), nsamples, *r );  //percentile from cancer samples; quantile(double r, int from, int to)         
              ˜˜˜˜˜˜˜˜˜           ^˜˜˜
copa.c:49:35: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         q2 = quantile7( values, (*ng1), nsamples, (1-*r) );  //percentile from cancer samples
              ˜˜˜˜˜˜˜˜˜           ^˜˜˜
copa.c:50:38: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         q3 = quantile7( values, 0, (*ng1), *r );
              ˜˜˜˜˜˜˜˜˜              ^˜˜˜
copa.c:51:38: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         q4 = quantile7( values, 0, (*ng1), (1-*r) );
              ˜˜˜˜˜˜˜˜˜              ^˜˜˜
5 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c cor.c -o cor.o
cor.c:34:23: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
   int nsamples = *ng1+*ng2;
       ˜˜˜˜˜˜˜˜   ˜˜˜˜^˜˜˜˜
cor.c:46:12: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
   for(i = *ng1; i < nsamples; i++)
         ˜ ^˜˜˜
2 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c fc.c -o fc.o
fc.c:25:23: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
   int nsamples = *ng1+*ng2;
       ˜˜˜˜˜˜˜˜   ˜˜˜˜^˜˜˜˜
fc.c:41:30: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         m1 = mean(values,0, *ng1);
              ˜˜˜˜           ^˜˜˜
fc.c:42:27: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         m2 = mean(values,*ng1, nsamples);
              ˜˜˜˜        ^˜˜˜
3 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c help.c -o help.o
help.c:21:19: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
  if (a<b) return(a);
           ˜˜˜˜˜˜ ^
help.c:22:15: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
  else return(b);  
       ˜˜˜˜˜˜ ^
help.c:182:9: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
    k = floor(ktmp);   
      ˜ ^˜˜˜˜˜˜˜˜˜˜
help.c:307:24: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
    R_qsort(values, 1, nsamples); 
    ˜˜˜˜˜˜˜            ^˜˜˜˜˜˜˜
help.c:315:27: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
    R_qsort(valuestmp, 1, nsamples);    
    ˜˜˜˜˜˜˜               ^˜˜˜˜˜˜˜
help.c:335:7: warning: explicitly assigning a variable of type 'double' to itself [-Wself-assign]
   var=var; ///(to-from-1); R=var(N-1) => /(count-1)
   ˜˜˜^˜˜˜
6 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c ort.c -o ort.o
ort.c:28:23: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
   int nsamples = *ng1+*ng2;
       ˜˜˜˜˜˜˜˜   ˜˜˜˜^˜˜˜˜
ort.c:52:35: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         med1 = median(values, 0, *ng1 );
                ˜˜˜˜˜˜            ^˜˜˜
ort.c:53:33: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         med2 = median(values, (*ng1), nsamples );
                ˜˜˜˜˜˜          ^˜˜˜
ort.c:54:32: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         mad = calcmad(values, *ng1, *ng2, med1, med2);
               ˜˜˜˜˜˜˜         ^˜˜˜
ort.c:54:38: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         mad = calcmad(values, *ng1, *ng2, med1, med2);
               ˜˜˜˜˜˜˜               ^˜˜˜
ort.c:56:36: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         q1 = quantile7(values, 0, *ng1, *r ); //g1
              ˜˜˜˜˜˜˜˜˜            ^˜˜˜
ort.c:57:36: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         q2 = quantile7(values, 0, *ng1, (1-*r) ); //g1
              ˜˜˜˜˜˜˜˜˜            ^˜˜˜
ort.c:58:33: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         q3 = quantile7(values, *ng1, nsamples, *r ); //g2
              ˜˜˜˜˜˜˜˜˜         ^˜˜˜
ort.c:59:33: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         q4 = quantile7(values, *ng1, nsamples, (1-*r) ); //g2
              ˜˜˜˜˜˜˜˜˜         ^˜˜˜
ort.c:61:32: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         iqrX = IQR(values, 0, *ng1);
                ˜˜˜            ^˜˜˜
ort.c:62:29: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         iqrY = IQR(values, *ng1, nsamples);
                ˜˜˜         ^˜˜˜
ort.c:74:10: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
        for(j = *ng1; j < nsamples; j++)
              ˜ ^˜˜˜
12 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c os.c -o os.o
os.c:28:23: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
   int nsamples = *ng1+*ng2;
       ˜˜˜˜˜˜˜˜   ˜˜˜˜^˜˜˜˜
os.c:67:10: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
        for(j = *ng1; j < nsamples; j++)
              ˜ ^˜˜˜
2 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c shift.c -o shift.o
shift.c:33:24: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
    int nsamples = *ng1+*ng2;
        ˜˜˜˜˜˜˜˜   ˜˜˜˜^˜˜˜˜
shift.c:34:18: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
    int tmpng1 = *ng1;
        ˜˜˜˜˜˜   ^˜˜˜
shift.c:35:18: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
    int tmpng2 = *ng2;
        ˜˜˜˜˜˜   ^˜˜˜
shift.c:42:35: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
    shifts=mini(*ng1,*ng2) - *min + 1;
          ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜^˜˜
shift.c:61:32: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         bsortdesc(values2, 0, *ng2); //if outlier in group 2
         ˜˜˜˜˜˜˜˜˜             ^˜˜˜
shift.c:62:32: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         bsortdesc(values1, 0, *ng1); //if outlier in group 1
         ˜˜˜˜˜˜˜˜˜             ^˜˜˜
shift.c:68:45: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
             t = fabs(student_t(values1, values2, *ng1, *ng2));
                      ˜˜˜˜˜˜˜˜˜                   ^˜˜˜
shift.c:68:51: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
             t = fabs(student_t(values1, values2, *ng1, *ng2));
                      ˜˜˜˜˜˜˜˜˜                         ^˜˜˜
shift.c:73:43: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
              shift2to1(values1, values2, *ng1, *ng2);
              ˜˜˜˜˜˜˜˜˜                   ^˜˜˜
shift.c:73:49: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
              shift2to1(values1, values2, *ng1, *ng2);
              ˜˜˜˜˜˜˜˜˜                         ^˜˜˜
shift.c:85:45: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
             t = fabs(student_t(values1, values2, *ng1, *ng2));
                      ˜˜˜˜˜˜˜˜˜                   ^˜˜˜
shift.c:85:51: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
             t = fabs(student_t(values1, values2, *ng1, *ng2));
                      ˜˜˜˜˜˜˜˜˜                         ^˜˜˜
shift.c:90:43: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
              shift1to2(values1, values2, *ng1, *ng2);
              ˜˜˜˜˜˜˜˜˜                   ^˜˜˜
shift.c:90:49: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
              shift1to2(values1, values2, *ng1, *ng2);
              ˜˜˜˜˜˜˜˜˜                         ^˜˜˜
shift.c:100:30: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         if (sum(values1, 0, *ng1)==0) result[i]=99;
             ˜˜˜             ^˜˜˜
shift.c:101:22: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
        if (sum(values2, 0, *ng2)==0) result[i]=99;
            ˜˜˜             ^˜˜˜
16 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c statistics.c -o statistics.o
statistics.c:44:13: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
  int n=*ng1+*ng2;
      ˜ ˜˜˜˜^˜˜˜˜
1 warning generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c student.c -o student.o
student.c:51:42: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         t = student_t(values1, values2, *ng1, *ng2);
             ˜˜˜˜˜˜˜˜˜                   ^˜˜˜
student.c:51:48: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         t = student_t(values1, values2, *ng1, *ng2);
             ˜˜˜˜˜˜˜˜˜                         ^˜˜˜
student.c:82:42: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         t = student_t(values1, values2, *ng1, *ng2);
             ˜˜˜˜˜˜˜˜˜                   ^˜˜˜
student.c:82:48: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         t = student_t(values1, values2, *ng1, *ng2);
             ˜˜˜˜˜˜˜˜˜                         ^˜˜˜
4 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c throw.c -o throw.o
throw.c:29:24: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
    int nsamples = *ng1+*ng2;
        ˜˜˜˜˜˜˜˜   ˜˜˜˜^˜˜˜˜
throw.c:30:18: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
    int tmpng1 = *ng1;
        ˜˜˜˜˜˜   ^˜˜˜
throw.c:31:18: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
    int tmpng2 = *ng2;
        ˜˜˜˜˜˜   ^˜˜˜
throw.c:37:35: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
    throws=mini(*ng1,*ng2) - *min + 1;
          ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜^˜˜
throw.c:59:32: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         bsortdesc(values2, 0, *ng2); //if outlier in group 2
         ˜˜˜˜˜˜˜˜˜             ^˜˜˜
throw.c:60:24: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
        bsortdesc(values1, 0, *ng1); //if outlier in group 1
        ˜˜˜˜˜˜˜˜˜             ^˜˜˜
throw.c:65:52: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
              t = fabs(student_t(values1, values2, *ng1, *ng2));
                       ˜˜˜˜˜˜˜˜˜                   ^˜˜˜
throw.c:65:58: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
              t = fabs(student_t(values1, values2, *ng1, *ng2));
                       ˜˜˜˜˜˜˜˜˜                         ^˜˜˜
throw.c:82:52: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
              t = fabs(student_t(values1, values2, *ng1, *ng2));
                       ˜˜˜˜˜˜˜˜˜                   ^˜˜˜
throw.c:82:58: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
              t = fabs(student_t(values1, values2, *ng1, *ng2));
                       ˜˜˜˜˜˜˜˜˜                         ^˜˜˜
throw.c:97:30: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         if (sum(values1, 0, *ng1)==0) result[i]=99;
             ˜˜˜             ^˜˜˜
throw.c:98:22: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
        if (sum(values2, 0, *ng2)==0) result[i]=99;
            ˜˜˜             ^˜˜˜
12 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c welch.c -o welch.o
welch.c:49:40: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         t = welch_t(values1, values2, *ng1, *ng2);
             ˜˜˜˜˜˜˜                   ^˜˜˜
welch.c:49:46: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         t = welch_t(values1, values2, *ng1, *ng2);
             ˜˜˜˜˜˜˜                         ^˜˜˜
welch.c:78:40: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         t = welch_t(values1, values2, *ng1, *ng2);
             ˜˜˜˜˜˜˜                   ^˜˜˜
welch.c:78:46: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         t = welch_t(values1, values2, *ng1, *ng2);
             ˜˜˜˜˜˜˜                         ^˜˜˜
welch.c:79:42: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         df = welch_df(values1, values2, *ng1, *ng2);
              ˜˜˜˜˜˜˜˜                   ^˜˜˜
welch.c:79:48: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         df = welch_df(values1, values2, *ng1, *ng2);
              ˜˜˜˜˜˜˜˜                         ^˜˜˜
6 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c wilcox.c -o wilcox.o
wilcox.c:32:23: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
   int nsamples = *ng1+*ng2;
       ˜˜˜˜˜˜˜˜   ˜˜˜˜^˜˜˜˜
wilcox.c:54:32: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
               min1 = (*ng1*(*ng1+1)) / 2;
                    ˜ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜^˜˜
wilcox.c:55:32: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
               min2 = (*ng2*(*ng2+1)) / 2;
                    ˜ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜^˜˜
wilcox.c:58:41: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         rang1 = calcrang(valuestmp, 0, *ng1) - min1;
                 ˜˜˜˜˜˜˜˜               ^˜˜˜
wilcox.c:59:38: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         rang2 = calcrang(valuestmp, *ng1, nsamples) - min2;
                 ˜˜˜˜˜˜˜˜            ^˜˜˜
wilcox.c:71:23: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
   int nsamples = *ng1+*ng2;
       ˜˜˜˜˜˜˜˜   ˜˜˜˜^˜˜˜˜
wilcox.c:91:32: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
               min1 = (*ng1*(*ng1+1)) / 2;
                    ˜ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜^˜˜
wilcox.c:92:33: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         min2 = (*ng2*(*ng2+1)) / 2;           
              ˜ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜^˜˜
wilcox.c:95:41: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
         rang1 = calcrang(valuestmp, 0, *ng1) - min1; 
                 ˜˜˜˜˜˜˜˜               ^˜˜˜
wilcox.c:96:37: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
               rang2 = calcrang(valuestmp, *ng1, nsamples) - min2;            
                       ˜˜˜˜˜˜˜˜            ^˜˜˜
10 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 cancerclass.so copa.o cor.o fc.o help.o ort.o os.o shift.o statistics.o student.o throw.o welch.o wilcox.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.12-bioc/meat/cancerclass.Rcheck/cancerclass/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 (cancerclass)

cancerclass.Rcheck/cancerclass-Ex.timings:

nameusersystemelapsed
GOLUB74.777 2.58278.968
fit0.0130.0010.013
loo0.0070.0010.007
nvalidate0.0130.0020.014
nvalidation-class0.0120.0020.013
plot0.0090.0010.009
predict.predictor-method0.0130.0020.015
prediction-class0.0140.0030.017
predictor-class0.0140.0030.017
summary.prediction-method0.0120.0020.015
validate0.0180.0040.021
validation-class0.0110.0020.014