Package: MANOR

Version: 1.32.0

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --no-vignettes --timings --no-multiarch MANOR_1.32.0.tar.gz

StartedAt: 2013-05-01 07:39:29 -0700 (Wed, 01 May 2013)

EndedAt: 2013-05-01 07:40:27 -0700 (Wed, 01 May 2013)

EllapsedTime: 58.3 seconds

RetCode: 0

Status:  WARNINGS

CheckDir: MANOR.Rcheck

Warnings: 1

* using log directory '/Users/biocbuild/bbs-2.12-bioc/meat/MANOR.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 'MANOR/DESCRIPTION' ... OK
* this is package 'MANOR' version '1.32.0'
* 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 'MANOR' 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 ... 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 use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking compiled code ... WARNING
File '/Users/biocbuild/bbs-2.12-bioc/meat/MANOR.Rcheck/MANOR/libs/MANOR.so':
  Found '___stderrp', possibly from 'stderr' (C)
    Objects: 'Rnem_exe.o', 'exememo.o', 'nem_alg.o', 'nem_mod.o',
      'nem_nei.o'
  Found '_exit', possibly from 'exit' (C)
    Object: 'exememo.o'
  Found '_printf', possibly from 'printf' (C)
    Object: 'lib_io.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:
  'html.sty', 'natbib.sty'

Consider the use of a .Rinstignore file: see 'Writing R Extensions',
or move the vignette sources from 'inst/doc' to 'vignettes'.
* checking examples ... [22s/23s] OK
Examples with CPU or elapsed time > 5s
     user system elapsed
nem 5.631  0.065   5.835
* 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

WARNING: There was 1 warning.
NOTE: There was 1 note.
See
  '/Users/biocbuild/bbs-2.12-bioc/meat/MANOR.Rcheck/00check.log'
for details.

* installing *source* package 'MANOR' ...
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c Rnem_arg.c -o Rnem_arg.o
Rnem_arg.c:89:42: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  StatModelP->Para.Prop_K    = GenAlloc( nk, sizeof(float),
                               ˜˜˜˜˜˜˜˜  ^˜
Rnem_arg.c:91:45: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  StatModelP->Para.Disp_KD   = GenAlloc( nk * DataP->NbVars, sizeof(float),
                               ˜˜˜˜˜˜˜˜  ˜˜˜^˜˜˜˜˜˜˜˜˜˜˜˜˜˜
Rnem_arg.c:93:45: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  StatModelP->Para.Center_KD = GenAlloc( nk * DataP->NbVars, sizeof(float),
                               ˜˜˜˜˜˜˜˜  ˜˜˜^˜˜˜˜˜˜˜˜˜˜˜˜˜˜
Rnem_arg.c:96:42: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  StatModelP->Para.NbObs_K   = GenAlloc( nk, sizeof(float),
                               ˜˜˜˜˜˜˜˜  ^˜
Rnem_arg.c:98:45: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  StatModelP->Para.NbObs_KD  = GenAlloc( nk * DataP->NbVars, sizeof(float),
                               ˜˜˜˜˜˜˜˜  ˜˜˜^˜˜˜˜˜˜˜˜˜˜˜˜˜˜
Rnem_arg.c:100:45: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  StatModelP->Para.Iner_KD   = GenAlloc( nk * DataP->NbVars, sizeof(float),
                               ˜˜˜˜˜˜˜˜  ˜˜˜^˜˜˜˜˜˜˜˜˜˜˜˜˜˜
Rnem_arg.c:103:49: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  StatModelP->Desc.DispSam_D = GenAlloc( DataP->NbVars, sizeof(float),
                               ˜˜˜˜˜˜˜˜  ˜˜˜˜˜˜˜^˜˜˜˜˜
Rnem_arg.c:105:49: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  StatModelP->Desc.MiniSam_D = GenAlloc( DataP->NbVars, sizeof(float),
                               ˜˜˜˜˜˜˜˜  ˜˜˜˜˜˜˜^˜˜˜˜˜
Rnem_arg.c:107:49: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  StatModelP->Desc.MaxiSam_D = GenAlloc( DataP->NbVars, sizeof(float),
                               ˜˜˜˜˜˜˜˜  ˜˜˜˜˜˜˜^˜˜˜˜˜
Rnem_arg.c:119:29: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
  NemParaP->BtaHeuStep    = DEFAULT_BTAHEUSTEP ;    /*V1.04-b*/
                          ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
Rnem_arg.c:16:30: note: expanded from macro 'DEFAULT_BTAHEUSTEP'
#define DEFAULT_BTAHEUSTEP   0.1                /*V1.04-b*/
                             ^˜˜
Rnem_arg.c:121:29: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
  NemParaP->BtaHeuDDrop   = DEFAULT_BTAHEUDDROP ;
                          ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
Rnem_arg.c:18:30: note: expanded from macro 'DEFAULT_BTAHEUDDROP'
#define DEFAULT_BTAHEUDDROP  0.8                /*V1.04-b*/
                             ^˜˜
Rnem_arg.c:123:29: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
  NemParaP->BtaHeuLLoss   = DEFAULT_BTAHEULLOSS ;
                          ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
Rnem_arg.c:20:30: note: expanded from macro 'DEFAULT_BTAHEULLOSS'
#define DEFAULT_BTAHEULLOSS  0.02               /*V1.04-b*/
                             ^˜˜˜
Rnem_arg.c:125:35: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
  NemParaP->BtaPsGrad.ConvThres = DEFAULT_BTAGRADCVTH ;
                                ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
Rnem_arg.c:22:30: note: expanded from macro 'DEFAULT_BTAGRADCVTH'
#define DEFAULT_BTAGRADCVTH  0.001              /*V1.06-f*/
                             ^˜˜˜˜
Rnem_arg.c:129:29: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
  NemParaP->CvThres       = DEFAULT_CVTHRES ;       /*V1.04-d*/
                          ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜
Rnem_arg.c:26:30: note: expanded from macro 'DEFAULT_CVTHRES'
#define DEFAULT_CVTHRES      0.01               /*V1.04-d*/
                             ^˜˜˜
14 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c Rnem_exe.c -o Rnem_exe.o
Rnem_exe.c:135:34: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  if (( *SiteVisitVP = GenAlloc( Npt, sizeof( int ), 0,
                       ˜˜˜˜˜˜˜˜  ^˜˜
Rnem_exe.c:201:28: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
           GenAlloc( ErrinfoP->Km * ErrinfoP->Km, sizeof( float ),
           ˜˜˜˜˜˜˜˜  ˜˜˜˜˜˜˜˜˜˜˜˜˜^˜˜˜˜˜˜˜˜˜˜˜˜˜
Rnem_exe.c:206:17: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
           GenAlloc( N * ErrinfoP->Kc, sizeof( float ),
           ˜˜˜˜˜˜˜˜  ˜˜^˜˜˜˜˜˜˜˜˜˜˜˜˜
Rnem_exe.c:259:44: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  if( ( (*perms_Kfact_K_p) = malloc( Kfact * K * sizeof( int ) ) ) == NULL )
                                     ˜˜˜˜˜˜^˜˜ ˜
Rnem_exe.c:262:27: warning: implicit conversion changes signedness: 'const int' to 'unsigned long' [-Wsign-conversion]
  if( ( array_K = malloc( K * sizeof( int ) ) ) == NULL ) {
                          ^ ˜
Rnem_exe.c:305:35: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  if ( ( redarr_am1 = malloc( ( A - 1 ) * sizeof( int ) ) ) == NULL ) 
                                ˜˜^˜˜   ˜
Rnem_exe.c:418:18: warning: implicit conversion changes signedness: 'int' to 'StatusET' [-Wsign-conversion]
    if ( ( err = SetVisitOrder( DataP->NbPts,   /*V1.04-e*/
               ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
Rnem_exe.c:426:18: warning: implicit conversion changes signedness: 'int' to 'StatusET' [-Wsign-conversion]
    if ( ( err = MakeErrinfo( NemParaP->RefName, DataP->NbPts,
               ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
Rnem_exe.c:437:22: warning: implicit conversion changes signedness: 'int' to 'StatusET' [-Wsign-conversion]
        if ( ( err = ReadNeiFilePHUPE( NemParaP->NeighSpec , neidescS, SpatialP ) ) != STS_OK )
                   ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
Rnem_exe.c:499:15: warning: implicit conversion changes signedness: 'int' to 'StatusET' [-Wsign-conversion]
        err = SetImageNeigh( NeighSpec, NeiDescS, &SpatialP->NeighData ) ;
            ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
Rnem_exe.c:532:36: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
        if ( ( kmaxesV = GenAlloc( nk, sizeof( int ),
                         ˜˜˜˜˜˜˜˜  ^˜
Rnem_exe.c:582:35: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
        ClassifM =  GenAlloc( Data.NbPts * StatModel.Spec.K, sizeof( float ), 0, "nem", "ClassifMP" ) ;
                    ˜˜˜˜˜˜˜˜  ˜˜˜˜˜˜˜˜˜˜˜^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
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 exememo.c -o exememo.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c lib_io.c -o lib_io.o
lib_io.c:42:20: warning: implicit conversion loses integer precision: 'size_t' (aka 'unsigned long') to 'int' [-Wshorten-64-to-32]
    int     mlen = strlen( MarkerS ) ;
            ˜˜˜˜   ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
lib_io.c:176:21: warning: implicit conversion loses integer precision: 'int' to 'char' [-Wconversion]
                c = getchar() ;
                  ˜ ^˜˜˜˜˜˜˜˜
lib_io.c:324:11: warning: implicit conversion loses integer precision: 'size_t' (aka 'unsigned long') to 'int' [-Wshorten-64-to-32]
    len = strlen( myline ) ;
        ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
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 nem_alg.c -o nem_alg.o
nem_alg.c:85:9: warning: 'MAXFLOAT' macro redefined
#define MAXFLOAT  3.40282347e+38F
        ^
/usr/include/architecture/i386/math.h:545:9: note: previous definition is here
#define MAXFLOAT        ((float)3.40282346638528860e+38)
        ^
nem_alg.c:114:11: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
   return atof( "nan" ) ;
   ˜˜˜˜˜˜ ^˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:566:13: warning: implicit conversion changes signedness: 'int' to 'StatusET' [-Wsign-conversion]
      sts = ClassifyByNemOneBeta( DataP, NemParaP, SpatialP, 
          ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:572:13: warning: implicit conversion changes signedness: 'int' to 'StatusET' [-Wsign-conversion]
      sts = ClassifyByNemHeuBeta( DataP, NemParaP, SpatialP, 
          ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:693:36: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
        DataP->SortPos_ND = GenAlloc( npt * nd, sizeof( int ), 
                            ˜˜˜˜˜˜˜˜  ˜˜˜˜^˜˜˜
nem_alg.c:697:21: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
        tabptV = GenAlloc( npt, sizeof( SortPtT ), 1, func, "tabptV" ) ;
                 ˜˜˜˜˜˜˜˜  ^˜˜
nem_alg.c:711:32: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
              qsort( (void *) tabptV, npt, sizeof( SortPtT ), CompSortValue ) ;
              ˜˜˜˜˜                   ^˜˜
nem_alg.c:714:32: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
              qsort( (void *) tabptV, npt, sizeof( SortPtT ), CompSortNoNan ) ;
              ˜˜˜˜˜                   ^˜˜
nem_alg.c:780:28: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  btaV = GenAlloc( nbtamax + 1 , sizeof( float ), 0, func, "btaV" ) ;
         ˜˜˜˜˜˜˜˜  ˜˜˜˜˜˜˜˜^˜˜
nem_alg.c:781:28: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  criV = GenAlloc( nbtamax + 1 , sizeof( float ), 0, func, "criV"  ) ;
         ˜˜˜˜˜˜˜˜  ˜˜˜˜˜˜˜˜^˜˜
nem_alg.c:782:28: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  clasiniM = GenAlloc( npt * nk, sizeof( float ), 0, func, "clasiniM" ) ;
             ˜˜˜˜˜˜˜˜  ˜˜˜˜^˜˜˜
nem_alg.c:783:29: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  clasbestM = GenAlloc( npt * nk, sizeof( float ), 0, func, "clasbestM" ) ;
              ˜˜˜˜˜˜˜˜  ˜˜˜˜^˜˜˜
nem_alg.c:790:8: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
          npt * nk * sizeof( float ) ) ;
          ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
nem_alg.c:790:8: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
          npt * nk * sizeof( float ) ) ;
          ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
nem_alg.c:833:39: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
      memcpy( ClassifM, clasiniM, npt * nk * sizeof( float ) ) ;
                                  ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
nem_alg.c:833:39: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
      memcpy( ClassifM, clasiniM, npt * nk * sizeof( float ) ) ;
                                  ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
nem_alg.c:835:13: warning: implicit conversion changes signedness: 'int' to 'StatusET' [-Wsign-conversion]
      sts = ClassifyByNemOneBeta( DataP, NemParaP, SpatialP, 
          ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:879:14: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
                              npt * nk * sizeof( float ) ) ;
                              ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
nem_alg.c:879:14: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
                              npt * nk * sizeof( float ) ) ;
                              ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
nem_alg.c:888:8: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
                        npt * nk * sizeof( float ) ) ;
                        ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
nem_alg.c:888:8: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
                        npt * nk * sizeof( float ) ) ;
                        ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
nem_alg.c:900:38: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
                  memcpy( clasbestM, ClassifM, npt * nk * sizeof( float ) ) ;
                                               ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
nem_alg.c:900:38: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
                  memcpy( clasbestM, ClassifM, npt * nk * sizeof( float ) ) ;
                                               ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
nem_alg.c:923:14: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
                              npt * nk * sizeof( float ) ) ;
                              ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
nem_alg.c:923:14: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
                              npt * nk * sizeof( float ) ) ;
                              ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
nem_alg.c:963:37: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy( ClassifM, clasiniM, npt * nk * sizeof( float ) ) ;
                                ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
nem_alg.c:963:37: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy( ClassifM, clasiniM, npt * nk * sizeof( float ) ) ;
                                ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
nem_alg.c:968:38: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy( ClassifM, clasbestM, npt * nk * sizeof( float ) ) ;
                                 ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
nem_alg.c:968:38: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy( ClassifM, clasbestM, npt * nk * sizeof( float ) ) ;
                                 ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
nem_alg.c:1025:45: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
        working.KmaxesV         = GenAlloc( nk, sizeof( int ), 0, func, "KmaxesV" ) ;
                                  ˜˜˜˜˜˜˜˜  ^˜
nem_alg.c:1026:49: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
        working.CtmpM           = GenAlloc( npt * nk, sizeof( float ), 0, func, "CtmpM" ) ;
                                  ˜˜˜˜˜˜˜˜  ˜˜˜˜^˜˜˜
nem_alg.c:1027:49: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
        working.ColdM           = GenAlloc( npt * nk, sizeof( float ), 0, func, "ColdM" ) ;
                                  ˜˜˜˜˜˜˜˜  ˜˜˜˜^˜˜˜
nem_alg.c:1028:45: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
        working.CiNumV          = GenAlloc( nk, sizeof( double ), 0, func, "CiNumV" ) ;
                                  ˜˜˜˜˜˜˜˜  ^˜
nem_alg.c:1029:49: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
        working.PkFkiM          = GenAlloc( npt * nk, sizeof( double ), 0, func, "PkFkiM" ) ;
                                  ˜˜˜˜˜˜˜˜  ˜˜˜˜^˜˜˜
nem_alg.c:1030:49: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
        working.LogPkFkiM       = GenAlloc( npt * nk, sizeof( float ), 0, func, "LogPkFkiM" ) ;
                                  ˜˜˜˜˜˜˜˜  ˜˜˜˜^˜˜˜
nem_alg.c:1032:55: warning: implicit conversion changes signedness: 'const int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
        working.Neighs.NeighsV  = GenAlloc( SpatialP->MaxNeighs, sizeof( NeighT ), 
                                  ˜˜˜˜˜˜˜˜  ˜˜˜˜˜˜˜˜˜˜^˜˜˜˜˜˜˜˜
nem_alg.c:1073:22: warning: implicit conversion changes signedness: 'int' to 'StatusET' [-Wsign-conversion]
        if ( ( err = InitPartitionSort( DataP, nk,
                   ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:1079:8: warning: implicit conversion changes signedness: 'int' to 'StatusET' [-Wsign-conversion]
        err = MakeParaFromLabeled( DataP, ClassifM, & StatModelP->Spec, 
            ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:1089:15: warning: implicit conversion changes signedness: 'int' to 'StatusET' [-Wsign-conversion]
        err = NemAlgo( DataP, NemParaP, SpatialP, & StatModelP->Spec, 
            ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:1105:8: warning: implicit conversion changes signedness: 'int' to 'StatusET' [-Wsign-conversion]
        err = MakeParaFromLabeled( DataP, ClassifM, & StatModelP->Spec, 
            ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:1111:15: warning: implicit conversion changes signedness: 'int' to 'StatusET' [-Wsign-conversion]
        err = NemAlgo( DataP, NemParaP, SpatialP, & StatModelP->Spec, 
            ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:1133:8: warning: implicit conversion changes signedness: 'int' to 'StatusET' [-Wsign-conversion]
        err = MakeParaFromLabeled( DataP, ClassifM, & StatModelP->Spec, 
            ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:1141:39: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
          StatModelP->Para.Prop_K[ k ] = 1.0 / nk ; /*V1.05-b*/
                                       ˜ ˜˜˜˜^˜˜˜
nem_alg.c:1148:15: warning: implicit conversion changes signedness: 'int' to 'StatusET' [-Wsign-conversion]
        err = NemAlgo( DataP, NemParaP, SpatialP, & StatModelP->Spec, 
            ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:1170:15: warning: implicit conversion changes signedness: 'int' to 'StatusET' [-Wsign-conversion]
        err = NemAlgo( DataP, NemParaP, SpatialP, & StatModelP->Spec, 
            ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:1413:32: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
      ParaP->Prop_K[ k ] = 1.0 / nk ; /*V1.03-e*/
                         ˜ ˜˜˜˜^˜˜˜
nem_alg.c:1502:13: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
            mult = exp( -((int) ( log(Npt/1000.)/log(10) )) * log( 10 ) ) ;
                 ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:1525:31: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
    if ( ( tabptV = GenAlloc( npt, sizeof( SortPtT ),
                    ˜˜˜˜˜˜˜˜  ^˜˜
nem_alg.c:1539:31: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
      qsort( (void *) tabptV, npt, sizeof( SortPtT ), CompSortValue ) ;
      ˜˜˜˜˜                   ^˜˜
nem_alg.c:1542:31: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
      qsort( (void *) tabptV, npt, sizeof( SortPtT ), CompSortNoNan ) ;
      ˜˜˜˜˜                   ^˜˜
nem_alg.c:1637:34: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  if ( ( bestClM = GenAlloc( npt * nk, sizeof(float), 
                   ˜˜˜˜˜˜˜˜  ˜˜˜˜^˜˜˜
nem_alg.c:1641:36: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  if ( ( bestCen_KD = GenAlloc( nk * nd, sizeof(float), 
                      ˜˜˜˜˜˜˜˜  ˜˜˜^˜˜˜
nem_alg.c:1645:36: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  if ( ( bestDis_KD = GenAlloc( nk * nd, sizeof(float), 
                      ˜˜˜˜˜˜˜˜  ˜˜˜^˜˜˜
nem_alg.c:1694:11: warning: implicit conversion changes signedness: 'int' to 'StatusET' [-Wsign-conversion]
    err = NemAlgo( DataP, NemParaP, SpatialP, SpecP, DescP,
        ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:1708:44: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
            memcpy( bestClM, ClassifM, npt * nk * sizeof(float) ) ;
                                       ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
nem_alg.c:1708:44: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
            memcpy( bestClM, ClassifM, npt * nk * sizeof(float) ) ;
                                       ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
nem_alg.c:1722:37: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
            memcpy( bestClM, ClassifM, npt * nk * sizeof(float) ) ;
                                       ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
nem_alg.c:1722:37: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
            memcpy( bestClM, ClassifM, npt * nk * sizeof(float) ) ;
                                       ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
nem_alg.c:1723:47: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
            memcpy( bestCen_KD, ParaP->Center_KD, nk * nd * sizeof(float) );
                                                  ˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
nem_alg.c:1723:47: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
            memcpy( bestCen_KD, ParaP->Center_KD, nk * nd * sizeof(float) );
                                                  ˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
nem_alg.c:1724:45: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
            memcpy( bestDis_KD, ParaP->Disp_KD, nk * nd * sizeof(float) );
                                                ˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
nem_alg.c:1724:45: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
            memcpy( bestDis_KD, ParaP->Disp_KD, nk * nd * sizeof(float) );
                                                ˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
nem_alg.c:1736:36: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy( ClassifM, bestClM, npt * nk * sizeof(float) ) ;
                               ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
nem_alg.c:1736:36: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy( ClassifM, bestClM, npt * nk * sizeof(float) ) ;
                               ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
nem_alg.c:1740:46: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy( ParaP->Center_KD, bestCen_KD, nk * nd * sizeof(float) );
                                          ˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
nem_alg.c:1740:46: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy( ParaP->Center_KD, bestCen_KD, nk * nd * sizeof(float) );
                                          ˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
nem_alg.c:1741:46: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy( ParaP->Disp_KD,   bestDis_KD, nk * nd * sizeof(float) );
                                          ˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
nem_alg.c:1741:46: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy( ParaP->Disp_KD,   bestDis_KD, nk * nd * sizeof(float) );
                                          ˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
nem_alg.c:1828:39: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        memcpy( WorkP->ColdM, CM, npt * nk * sizeof( float ) ) ;
                                  ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
nem_alg.c:1828:39: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        memcpy( WorkP->ColdM, CM, npt * nk * sizeof( float ) ) ;
                                  ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
nem_alg.c:2127:12: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
        critdif = fabs( ( curcrit - OldCrit ) / curcrit ) ;
                ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:2208:11: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
        exp_ik = exp( (*BetaP) * con_ik ) ;
               ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:2353:12: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
          logpk = log( pk ) ;
                ˜ ^˜˜˜˜˜˜˜˜
nem_alg.c:2356:14: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
            logpk = atof( "-Inf" ) ;
                  ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:2395:13: warning: implicit conversion changes signedness: 'int' to 'StatusET' [-Wsign-conversion]
      sts = ComputePartitionGEM( SpecP, ParaP, DataP, SpatialP, NemParaP, 
          ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:2400:13: warning: implicit conversion changes signedness: 'int' to 'StatusET' [-Wsign-conversion]
      sts = ComputePartitionNEM( SpecP, ParaP, DataP, SpatialP, NemParaP, 
          ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:2438:18: warning: implicit conversion changes signedness: 'int' to 'StatusET' [-Wsign-conversion]
    if ( ( err = GetSpatialFunc( SpatialP->Type, 
               ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:2449:32: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        memcpy( ctmpM, CM, npt * nk * sizeof( float ) ) ;
                           ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
nem_alg.c:2449:32: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        memcpy( ctmpM, CM, npt * nk * sizeof( float ) ) ;
                           ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
nem_alg.c:2524:18: warning: implicit conversion changes signedness: 'int' to 'StatusET' [-Wsign-conversion]
    if ( ( err = GetSpatialFunc( SpatialP->Type, 
               ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:2532:33: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
    if ( ( z_nk = GenAlloc( npt * nk, sizeof( float ), 
                  ˜˜˜˜˜˜˜˜  ˜˜˜˜^˜˜˜
nem_alg.c:2536:37: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
    if ( ( occur_nk = GenAlloc( npt * nk, sizeof( int ),
                      ˜˜˜˜˜˜˜˜  ˜˜˜˜^˜˜˜
nem_alg.c:2567:34: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        memcpy( ctmpM, z_nk, npt * nk * sizeof( float ) ) ;
                             ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
nem_alg.c:2567:34: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
        memcpy( ctmpM, z_nk, npt * nk * sizeof( float ) ) ;
                             ˜˜˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
nem_alg.c:2676:21: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
        Cout_K[ k ] = invZ * Cinum_K[ k ] ;
                    ˜ ˜˜˜˜˜^˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:2682:21: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
        Cout_K[ k ] = invZ * ( Cinum_K[ k ] / EPSILON ) ;
                    ˜ ˜˜˜˜˜^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:2689:21: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
      Cout_K[ k ] = invZ ;
                  ˜ ^˜˜˜
nem_alg.c:2722:12: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
    mult = exp( - ((int) ( log(Npt/1000.)/log(10) )) * log( 10 ) ) ;
         ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:2778:18: warning: implicit conversion changes signedness: 'int' to 'StatusET' [-Wsign-conversion]
    if ( ( err = GetSpatialFunc( SpatialP->Type, 
               ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:2813:33: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
                float dik = cik * ( logpkfki - log( cik ) ) ;
                      ˜˜˜   ˜˜˜˜^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:2822:14: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
            zi = zi + exp( Beta * pik ) ;
               ˜ ˜˜˜^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:2826:26: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
        CriterP->L = CriterP->L + log( fi ) ;
                   ˜ ˜˜˜˜˜˜˜˜˜˜˜^˜˜˜˜˜˜˜˜˜˜
nem_alg.c:2827:26: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
        CriterP->Z = CriterP->Z - log( zi ) ;
                   ˜ ˜˜˜˜˜˜˜˜˜˜˜^˜˜˜˜˜˜˜˜˜˜
nem_alg.c:2832:29: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
    CriterP->U = CriterP->D + 0.5 * Beta * CriterP->G ; /*V1.05-k*/
               ˜ ˜˜˜˜˜˜˜˜˜˜˜^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_alg.c:2877:25: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  kmaxes_Kc = GenAlloc( Kc, sizeof( int ), 0, "CalcError", "kmaxes_Kc" ) ;
              ˜˜˜˜˜˜˜˜  ^˜
nem_alg.c:2882:36: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memcpy( Loclas_N_Kc, Cla_N_Kc, N * Kc * sizeof(float) ) ;
                                 ˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
nem_alg.c:2882:36: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memcpy( Loclas_N_Kc, Cla_N_Kc, N * Kc * sizeof(float) ) ;
                                 ˜˜^˜˜˜ ˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
97 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c nem_hlp.c -o nem_hlp.o
nem_hlp.c:95:24: warning: illegal character encoding in string literal [-Winvalid-source-encoding]
    fprintf( F , "Van M<9F> Dang\n" ) ;
                       ^˜˜˜
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 nem_mod.c -o nem_mod.o
nem_mod.c:51:9: warning: 'MAXFLOAT' macro redefined
#define MAXFLOAT  3.40282347e+38F
        ^
/usr/include/architecture/i386/math.h:545:9: note: previous definition is here
#define MAXFLOAT        ((float)3.40282346638528860e+38)
        ^
nem_mod.c:539:32: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
      ParaP->Prop_K[ k ] = 1.0 / Nk ;
                         ˜ ˜˜˜˜^˜˜˜
nem_mod.c:598:17: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
        log_2pi_disp = log( TWO_PI * disp ) ;
                     ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_mod.c:612:28: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
            float logfkid = - 0.5 * ( log_2pi_disp + ( dif * dif ) / disp ) ;
                  ˜˜˜˜˜˜˜   ˜˜˜˜˜˜^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_mod.c:678:15: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
        log_2_disp = log( 2 * disp ) ;
                   ˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_mod.c:692:35: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
            float logfkid = - log_2_disp - fabs( dif ) / disp ;
                  ˜˜˜˜˜˜˜   ˜˜˜˜˜˜˜˜˜˜˜˜˜^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_mod.c:743:33: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
      float  log_1_minus_disp = log( 1 - disp ) ;
             ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜   ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_mod.c:747:13: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
        log_disp = log( disp ) ;
                 ˜ ^˜˜˜˜˜˜˜˜˜˜
nem_mod.c:1116:30: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  sumdata_KD   = GenAlloc( K * D, sizeof(float), 1, func, "sumdata" ) ;
                 ˜˜˜˜˜˜˜˜  ˜˜^˜˜
nem_mod.c:1117:30: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  sumsquare_KD = GenAlloc( K * D, sizeof(float), 1, func, "sumsquare" );
                 ˜˜˜˜˜˜˜˜  ˜˜^˜˜
nem_mod.c:1118:30: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  oldmean_KD   = GenAlloc( K * D, sizeof(float), 1, func, "oldmean" ) ;
                 ˜˜˜˜˜˜˜˜  ˜˜^˜˜
nem_mod.c:1121:41: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memcpy( oldmean_KD , OldNewCen_KD , K * D * sizeof( float ) ) ;
                                      ˜˜^˜˜ ˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
nem_mod.c:1121:41: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memcpy( oldmean_KD , OldNewCen_KD , K * D * sizeof( float ) ) ;
                                      ˜˜^˜˜ ˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
nem_mod.c:1578:30: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
  oldcent_KD   = GenAlloc( K * D, sizeof(float), 1, func, "oldcent_KD" ) ;
                 ˜˜˜˜˜˜˜˜  ˜˜^˜˜
nem_mod.c:1581:41: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memcpy( oldcent_KD , OldNewCen_KD , K * D * sizeof( float ) ) ;
                                      ˜˜^˜˜ ˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
nem_mod.c:1581:41: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
  memcpy( oldcent_KD , OldNewCen_KD , K * D * sizeof( float ) ) ;
                                      ˜˜^˜˜ ˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
nem_mod.c:1809:22: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
    (*MedvalP) = 0.5 * ( X_ND[ posmed * D + J ] + X_ND[ posnext * D + J ] ) ;
               ˜ ˜˜˜˜^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_mod.c:1939:16: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
    res = Cen0 + direction * Disp0 * log( 1 - ( weidif + intwei ) / Nmis ) ;
        ˜ ˜˜˜˜˜^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
nem_mod.c:1968:5: warning: implicit conversion loses floating-point precision: 'double' to 'float' [-Wconversion]
    - Nmis * ( 1 - exp( - fabs( Y - Cen0 ) / Disp0 ) ) ;
    ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
19 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c nem_nei.c -o nem_nei.o
nem_nei.c:138:48: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy( PtNeighsP->NeighsV, ptnP->NeighsV, nbn * sizeof( NeighT ) );
                                               ^˜˜ ˜
/usr/include/secure/_string.h:52:41: note: expanded from macro 'memcpy'
   ? __builtin___memcpy_chk (dest, src, len, __darwin_obsz0 (dest))     \
                                        ^
nem_nei.c:138:48: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
    memcpy( PtNeighsP->NeighsV, ptnP->NeighsV, nbn * sizeof( NeighT ) );
                                               ^˜˜ ˜
/usr/include/secure/_string.h:53:38: note: expanded from macro 'memcpy'
   : __inline_memcpy_chk (dest, src, len))
                                     ^
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 nem_rnd.c -o nem_rnd.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG  -I/usr/local/include    -fPIC  -mtune=native -ggdb -O0 -Wall -pedantic -Wconversion -c nem_ver.c -o nem_ver.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 MANOR.so Rnem_arg.o Rnem_exe.o exememo.o lib_io.o nem_alg.o nem_hlp.o nem_mod.o nem_nei.o nem_rnd.o nem_ver.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.12-bioc/meat/MANOR.Rcheck/MANOR/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 (MANOR)

name	user	system	elapsed
arrayTrend	0.865	0.031	0.929
detectSB	0.784	0.032	0.944
flag.arrayCGH	2.739	0.087	2.955
flag.summary	0.201	0.017	0.219
flags	0.203	0.027	0.236
genome.plot	0.930	0.034	0.995
import	0.435	0.015	0.470
nem	5.631	0.065	5.835
norm	2.043	0.068	2.193
qscore.arrayCGH	0.239	0.017	0.270
qscore.summary	1.104	0.028	1.238
qscores	1.098	0.026	1.163
report.plot	2.025	0.076	2.185
sort	0.415	0.027	0.469
spatial	0.493	0.030	0.545
to.flag	0.873	0.037	0.942