Back to the "Multiple platform build/check report" A [B] C  D  E  F  G  H  I  J  K  L  M  N  O  P  Q  R  S  T  U  V  W  X  Y  Z 

Package 91/671HostnameOS / ArchBUILDCHECKBUILD BIN
BufferedMatrix 1.24.0
Benjamin Milo Bolstad
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/BufferedMatrix
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: BufferedMatrix
Version: 1.24.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch BufferedMatrix_1.24.0.tar.gz
StartedAt: 2013-05-01 03:09:32 -0700 (Wed, 01 May 2013)
EndedAt: 2013-05-01 03:13:18 -0700 (Wed, 01 May 2013)
EllapsedTime: 226.7 seconds
RetCode: 0
Status:  OK 
CheckDir: BufferedMatrix.Rcheck
Warnings: 0

Command output

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/BufferedMatrix.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 'BufferedMatrix/DESCRIPTION' ... OK
* this is package 'BufferedMatrix' version '1.24.0'
* 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 'BufferedMatrix' can be installed ... [4s/4s] 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
NB: .First.lib is obsolete and will not be used in R >= 3.0.0

as.BufferedMatrix: warning in createBufferedMatrix(rows = dim(x)[1],
  cols = dim(x)[2], bufferrows = bufferrows, buffercols = buffercols,
  director = directory): partial argument match of 'director' to
  'directory'
* checking Rd files ... NOTE
prepare_Rd: createBufferedMatrix.Rd:26: Dropping empty section \keyword
prepare_Rd: createBufferedMatrix.Rd:17-18: Dropping empty section \details
prepare_Rd: createBufferedMatrix.Rd:15-16: Dropping empty section \value
prepare_Rd: createBufferedMatrix.Rd:19-20: Dropping empty section \references
prepare_Rd: createBufferedMatrix.Rd:21-22: Dropping empty section \seealso
prepare_Rd: createBufferedMatrix.Rd:23-24: 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 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 ... NONE
* checking for unstated dependencies in tests ... OK
* checking tests ...
  Running 'Rcodetesting.R' [1s/1s]
  Running 'c_code_level_tests.R' [1s/1s]
  Running 'objectTesting.R' [17s/190s]
  Running 'rawCalltesting.R' [1s/1s]
 [20s/193s] 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/BufferedMatrix.Rcheck/00check.log'
for details.

BufferedMatrix.Rcheck/00install.out:

* installing *source* package 'BufferedMatrix' ...
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c RBufferedMatrix.c -o RBufferedMatrix.o
RBufferedMatrix.c:135:22: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
  Matrix = dbm_alloc(max_rows,max_cols,prefix,directory);
           ˜˜˜˜˜˜˜˜˜ ^˜˜˜˜˜˜˜
RBufferedMatrix.c:135:31: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
  Matrix = dbm_alloc(max_rows,max_cols,prefix,directory);
           ˜˜˜˜˜˜˜˜˜          ^˜˜˜˜˜˜˜
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 doubleBufferedMatrix.c -o doubleBufferedMatrix.o
doubleBufferedMatrix.c:402:26: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    fseek(myfile,Matrix->first_rowdata*sizeof(double),SEEK_SET);
                 ˜˜˜˜˜˜˜˜^˜˜˜˜˜˜˜˜˜˜˜˜˜
doubleBufferedMatrix.c:403:77: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
    blocks_written = fwrite(&(Matrix->rowdata)[j][0],sizeof(double),Matrix->max_rows,myfile);
                     ˜˜˜˜˜˜                                         ˜˜˜˜˜˜˜˜^˜˜˜˜˜˜˜
doubleBufferedMatrix.c:403:22: warning: implicit conversion loses integer precision: 'size_t' (aka 'unsigned long') to 'int' [-Wshorten-64-to-32]
    blocks_written = fwrite(&(Matrix->rowdata)[j][0],sizeof(double),Matrix->max_rows,myfile);
                   ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
doubleBufferedMatrix.c:440:69: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  blocks_written = fwrite(Matrix->coldata[0],sizeof(double),Matrix->rows,myfile);
                   ˜˜˜˜˜˜                                   ˜˜˜˜˜˜˜˜^˜˜˜
doubleBufferedMatrix.c:440:20: warning: implicit conversion loses integer precision: 'size_t' (aka 'unsigned long') to 'int' [-Wshorten-64-to-32]
  blocks_written = fwrite(Matrix->coldata[0],sizeof(double),Matrix->rows,myfile);
                 ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
doubleBufferedMatrix.c:491:71: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
    blocks_written = fwrite(Matrix->coldata[k],sizeof(double),Matrix->rows,myfile);
                     ˜˜˜˜˜˜                                   ˜˜˜˜˜˜˜˜^˜˜˜
doubleBufferedMatrix.c:491:22: warning: implicit conversion loses integer precision: 'size_t' (aka 'unsigned long') to 'int' [-Wshorten-64-to-32]
    blocks_written = fwrite(Matrix->coldata[k],sizeof(double),Matrix->rows,myfile);
                   ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
doubleBufferedMatrix.c:551:74: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  blocks_read = fread(Matrix->coldata[lastcol -1],sizeof(double),Matrix->rows,myfile);
                ˜˜˜˜˜                                            ˜˜˜˜˜˜˜˜^˜˜˜
doubleBufferedMatrix.c:551:17: warning: implicit conversion loses integer precision: 'size_t' (aka 'unsigned long') to 'int' [-Wshorten-64-to-32]
  blocks_read = fread(Matrix->coldata[lastcol -1],sizeof(double),Matrix->rows,myfile);
              ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
doubleBufferedMatrix.c:662:26: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    fseek(myfile,Matrix->first_rowdata*sizeof(double),SEEK_SET);
                 ˜˜˜˜˜˜˜˜^˜˜˜˜˜˜˜˜˜˜˜˜˜
doubleBufferedMatrix.c:663:73: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
    blocks_read = fread(&(Matrix->rowdata)[j][0],sizeof(double),Matrix->max_rows,myfile);
                  ˜˜˜˜˜                                         ˜˜˜˜˜˜˜˜^˜˜˜˜˜˜˜
doubleBufferedMatrix.c:663:19: warning: implicit conversion loses integer precision: 'size_t' (aka 'unsigned long') to 'int' [-Wshorten-64-to-32]
    blocks_read = fread(&(Matrix->rowdata)[j][0],sizeof(double),Matrix->max_rows,myfile);
                ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
doubleBufferedMatrix.c:720:69: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  blocks_read = fread(Matrix->coldata[where],sizeof(double),Matrix->rows,myfile);
                ˜˜˜˜˜                                       ˜˜˜˜˜˜˜˜^˜˜˜
doubleBufferedMatrix.c:720:17: warning: implicit conversion loses integer precision: 'size_t' (aka 'unsigned long') to 'int' [-Wshorten-64-to-32]
  blocks_read = fread(Matrix->coldata[where],sizeof(double),Matrix->rows,myfile);
              ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
doubleBufferedMatrix.c:1049:72: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memset(&Matrix->coldata[Matrix->cols][0],0,sizeof(double)* Matrix->rows);
                                                             ˜ ˜˜˜˜˜˜˜˜^˜˜˜
/usr/include/secure/_string.h:74:41: note: expanded from macro 'memset'
   ? __builtin___memset_chk (dest, val, len, __darwin_obsz0 (dest))     \
                                        ^
doubleBufferedMatrix.c:1049:72: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memset(&Matrix->coldata[Matrix->cols][0],0,sizeof(double)* Matrix->rows);
                                                             ˜ ˜˜˜˜˜˜˜˜^˜˜˜
/usr/include/secure/_string.h:75:38: note: expanded from macro 'memset'
   : __inline_memset_chk (dest, val, len))
                                     ^
doubleBufferedMatrix.c:1072:67: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
      memset(&temp_ptr[Matrix->cols][0],0,sizeof(double)* Matrix->max_rows);
                                                        ˜ ˜˜˜˜˜˜˜˜^˜˜˜˜˜˜˜
/usr/include/secure/_string.h:74:41: note: expanded from macro 'memset'
   ? __builtin___memset_chk (dest, val, len, __darwin_obsz0 (dest))     \
                                        ^
doubleBufferedMatrix.c:1072:67: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
      memset(&temp_ptr[Matrix->cols][0],0,sizeof(double)* Matrix->max_rows);
                                                        ˜ ˜˜˜˜˜˜˜˜^˜˜˜˜˜˜˜
/usr/include/secure/_string.h:75:38: note: expanded from macro 'memset'
   : __inline_memset_chk (dest, val, len))
                                     ^
doubleBufferedMatrix.c:1088:65: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
    blocks_written = fwrite(&temp_col[0],sizeof(double),Matrix->rows,myfile);
                     ˜˜˜˜˜˜                             ˜˜˜˜˜˜˜˜^˜˜˜
doubleBufferedMatrix.c:1107:78: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memset(&Matrix->coldata[Matrix->max_cols-1][0],0,sizeof(double)* Matrix->rows);
                                                                   ˜ ˜˜˜˜˜˜˜˜^˜˜˜
/usr/include/secure/_string.h:74:41: note: expanded from macro 'memset'
   ? __builtin___memset_chk (dest, val, len, __darwin_obsz0 (dest))     \
                                        ^
doubleBufferedMatrix.c:1107:78: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memset(&Matrix->coldata[Matrix->max_cols-1][0],0,sizeof(double)* Matrix->rows);
                                                                   ˜ ˜˜˜˜˜˜˜˜^˜˜˜
/usr/include/secure/_string.h:75:38: note: expanded from macro 'memset'
   : __inline_memset_chk (dest, val, len))
                                     ^
doubleBufferedMatrix.c:1128:67: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
      memset(&temp_ptr[Matrix->cols][0],0,sizeof(double)* Matrix->max_rows);
                                                        ˜ ˜˜˜˜˜˜˜˜^˜˜˜˜˜˜˜
/usr/include/secure/_string.h:74:41: note: expanded from macro 'memset'
   ? __builtin___memset_chk (dest, val, len, __darwin_obsz0 (dest))     \
                                        ^
doubleBufferedMatrix.c:1128:67: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
      memset(&temp_ptr[Matrix->cols][0],0,sizeof(double)* Matrix->max_rows);
                                                        ˜ ˜˜˜˜˜˜˜˜^˜˜˜˜˜˜˜
/usr/include/secure/_string.h:75:38: note: expanded from macro 'memset'
   : __inline_memset_chk (dest, val, len))
                                     ^
doubleBufferedMatrix.c:1172:83: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  blocks_written = fwrite(Matrix->coldata[which_col_num],sizeof(double),  Matrix->rows, myfile);
                   ˜˜˜˜˜˜                                                 ˜˜˜˜˜˜˜˜^˜˜˜
doubleBufferedMatrix.c:1088:22: warning: implicit conversion loses integer precision: 'size_t' (aka 'unsigned long') to 'int' [-Wshorten-64-to-32]
    blocks_written = fwrite(&temp_col[0],sizeof(double),Matrix->rows,myfile);
                   ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
doubleBufferedMatrix.c:1172:20: warning: implicit conversion loses integer precision: 'size_t' (aka 'unsigned long') to 'int' [-Wshorten-64-to-32]
  blocks_written = fwrite(Matrix->coldata[which_col_num],sizeof(double),  Matrix->rows, myfile);
                 ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
doubleBufferedMatrix.c:1890:70: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        memcpy(&value[j*Matrix->rows],&(Matrix->coldata[curcol][0]),Matrix->rows*sizeof(double));
                                                                    ˜˜˜˜˜˜˜˜^˜˜˜˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
doubleBufferedMatrix.c:1890:70: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        memcpy(&value[j*Matrix->rows],&(Matrix->coldata[curcol][0]),Matrix->rows*sizeof(double));
                                                                    ˜˜˜˜˜˜˜˜^˜˜˜˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
doubleBufferedMatrix.c:1895:83: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        memcpy(&value[j*Matrix->rows],&(Matrix->coldata[Matrix->max_cols -1][0]),Matrix->rows*sizeof(double));
                                                                                 ˜˜˜˜˜˜˜˜^˜˜˜˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
doubleBufferedMatrix.c:1895:83: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        memcpy(&value[j*Matrix->rows],&(Matrix->coldata[Matrix->max_cols -1][0]),Matrix->rows*sizeof(double));
                                                                                 ˜˜˜˜˜˜˜˜^˜˜˜˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
doubleBufferedMatrix.c:2006:70: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        memcpy(&(Matrix->coldata[curcol][0]),&value[j*Matrix->rows],Matrix->rows*sizeof(double));
                                                                    ˜˜˜˜˜˜˜˜^˜˜˜˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
doubleBufferedMatrix.c:2006:70: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        memcpy(&(Matrix->coldata[curcol][0]),&value[j*Matrix->rows],Matrix->rows*sizeof(double));
                                                                    ˜˜˜˜˜˜˜˜^˜˜˜˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
doubleBufferedMatrix.c:2011:83: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        memcpy(&(Matrix->coldata[Matrix->max_cols -1][0]),&value[j*Matrix->rows],Matrix->rows*sizeof(double));
                                                                                 ˜˜˜˜˜˜˜˜^˜˜˜˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
doubleBufferedMatrix.c:2011:83: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        memcpy(&(Matrix->coldata[Matrix->max_cols -1][0]),&value[j*Matrix->rows],Matrix->rows*sizeof(double));
                                                                                 ˜˜˜˜˜˜˜˜^˜˜˜˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
doubleBufferedMatrix.c:2108:12: warning: implicit conversion loses integer precision: 'size_t' (aka 'unsigned long') to 'int' [-Wshorten-64-to-32]
  int len= strlen(Matrix->fileprefix);
      ˜˜˜  ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
doubleBufferedMatrix.c:2122:13: warning: implicit conversion loses integer precision: 'size_t' (aka 'unsigned long') to 'int' [-Wshorten-64-to-32]
  int len = strlen(Matrix->filedirectory);
      ˜˜˜   ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
doubleBufferedMatrix.c:2136:13: warning: implicit conversion loses integer precision: 'size_t' (aka 'unsigned long') to 'int' [-Wshorten-64-to-32]
  int len = strlen(Matrix->filenames[col]);
      ˜˜˜   ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
doubleBufferedMatrix.c:2161:13: warning: implicit conversion loses integer precision: 'size_t' (aka 'unsigned long') to 'int' [-Wshorten-64-to-32]
  int len = strlen(newdirectory);
      ˜˜˜   ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
doubleBufferedMatrix.c:3565:27: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    object_size+= Matrix->cols*sizeof(double *);
                  ˜˜˜˜˜˜˜˜^˜˜˜˜
doubleBufferedMatrix.c:3566:31: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    object_size+= Matrix->cols*Matrix->rows*sizeof(double);
                  ˜˜˜˜˜˜˜˜˜˜˜˜^˜˜˜˜˜˜˜˜˜˜˜˜˜
doubleBufferedMatrix.c:3567:27: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    object_size+= Matrix->cols*sizeof(int);
                  ˜˜˜˜˜˜˜˜^˜˜˜˜
doubleBufferedMatrix.c:3569:27: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    object_size+= Matrix->max_cols*sizeof(double *);
                  ˜˜˜˜˜˜˜˜^˜˜˜˜˜˜˜˜
doubleBufferedMatrix.c:3570:35: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    object_size+= Matrix->max_cols*Matrix->rows*sizeof(double);
                  ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜^˜˜˜˜˜˜˜˜˜˜˜˜˜
doubleBufferedMatrix.c:3571:27: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    object_size+= Matrix->max_cols*sizeof(int);
                  ˜˜˜˜˜˜˜˜^˜˜˜˜˜˜˜˜
doubleBufferedMatrix.c:3576:27: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    object_size+= Matrix->cols*sizeof(double *);
                  ˜˜˜˜˜˜˜˜^˜˜˜˜
doubleBufferedMatrix.c:3578:33: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
      object_size+= Matrix->rows*Matrix->max_rows*sizeof(double);
                    ˜˜˜˜˜˜˜˜˜˜˜˜^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
doubleBufferedMatrix.c:3580:33: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
      object_size+= Matrix->cols*Matrix->max_rows*sizeof(double);
                    ˜˜˜˜˜˜˜˜˜˜˜˜^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
doubleBufferedMatrix.c:3589:25: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  object_size+= Matrix->cols*sizeof(char *);
                ˜˜˜˜˜˜˜˜^˜˜˜˜
doubleBufferedMatrix.c:3327:12: warning: unused function 'sort_double' [-Wunused-function]
static int sort_double(const double *a1,const double *a2){
           ^
49 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c doubleBufferedMatrix_C_tests.c -o doubleBufferedMatrix_C_tests.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c init_package.c -o init_package.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 BufferedMatrix.so RBufferedMatrix.o doubleBufferedMatrix.o doubleBufferedMatrix_C_tests.o init_package.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.12-bioc/meat/BufferedMatrix.Rcheck/BufferedMatrix/libs
** R
** inst
** preparing package for lazy loading
Creating a new generic function for 'rowMeans' in package 'BufferedMatrix'
Creating a new generic function for 'rowSums' in package 'BufferedMatrix'
Creating a new generic function for 'colMeans' in package 'BufferedMatrix'
Creating a new generic function for 'colSums' in package 'BufferedMatrix'
Creating a generic function for 'ncol' from package 'base' in package 'BufferedMatrix'
Creating a generic function for 'nrow' from package 'base' in package 'BufferedMatrix'
Creating a generic function for 'mean' from package 'base' in package 'BufferedMatrix'
Creating a generic function for 'as.matrix' from package 'base' in package 'BufferedMatrix'
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
Warning: ignoring .First.lib() for package 'BufferedMatrix'
* DONE (BufferedMatrix)