simpleaffy 2.36.0
Crispin Miller
| 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/simpleaffy | | 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 ] |
>>>>>>>
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=simpleaffy.buildbin-libdir simpleaffy_2.36.0.tar.gz'
>>>>>>>
* installing *source* package 'simpleaffy' ...
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -mtune=native -g -O2 -Wall -pedantic -Wconversion -c simpleaffy.c -o simpleaffy.o
simpleaffy.c:84:18: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
r = median(a,nx);
˜˜˜˜˜˜ ^˜
simpleaffy.c:166:31: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
tmpa = (double *) R_alloc(*nacol,sizeof(double));
˜˜˜˜˜˜˜ ^˜˜˜˜˜
simpleaffy.c:167:31: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
tmpb = (double *) R_alloc(*nbcol,sizeof(double));
˜˜˜˜˜˜˜ ^˜˜˜˜˜
simpleaffy.c:273:31: warning: implicit conversion turns floating-point number into integer: 'double' to 'size_t' (aka 'unsigned long') [-Wconversion]
r = (double *) R_alloc(nx,sizeof(double));
˜˜˜˜˜˜˜ ^˜
simpleaffy.c:274:31: warning: implicit conversion turns floating-point number into integer: 'double' to 'size_t' (aka 'unsigned long') [-Wconversion]
absx = (double *) R_alloc(nx,sizeof(double));
˜˜˜˜˜˜˜ ^˜
simpleaffy.c:275:28: warning: implicit conversion turns floating-point number into integer: 'double' to 'size_t' (aka 'unsigned long') [-Wconversion]
xidx = (int *) R_alloc(nx,sizeof(int));
˜˜˜˜˜˜˜ ^˜
simpleaffy.c:281:30: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
rsort_with_index(absx,xidx,nx);
˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜ ^˜
simpleaffy.c:282:13: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
rank(absx,nx,r);
˜˜˜˜ ^˜
simpleaffy.c:327:32: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
ignore = ( int * )R_alloc( n, sizeof( int ) ) ;
˜˜˜˜˜˜˜ ^
simpleaffy.c:352:29: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
dv = ( double * )R_alloc( n, sizeof( double ) ) ;
˜˜˜˜˜˜˜ ^
simpleaffy.c:413:43: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
double **scratches= (double **) R_alloc(ngrid,sizeof(double*));
˜˜˜˜˜˜˜ ^˜˜˜˜
simpleaffy.c:414:43: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
int *ends = (int *) R_alloc(ngrid,sizeof(int));
˜˜˜˜˜˜˜ ^˜˜˜˜
simpleaffy.c:415:43: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
double *xc = (double *) R_alloc(ngrid,sizeof(double));
˜˜˜˜˜˜˜ ^˜˜˜˜
simpleaffy.c:416:43: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
double *yc = (double *) R_alloc(ngrid,sizeof(double));
˜˜˜˜˜˜˜ ^˜˜˜˜
simpleaffy.c:423:39: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
scratches[i] = (double *) R_alloc(cellsize,sizeof(double));
˜˜˜˜˜˜˜ ^˜˜˜˜˜˜˜
simpleaffy.c:443:26: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
pn = (2.0 * ends[i]) / 100; /* 2% of the probes in each square */
˜ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜^˜˜˜˜
16 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 simpleaffy.so simpleaffy.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.12-bioc/meat/simpleaffy.buildbin-libdir/simpleaffy/libs
** R
** data
** inst
** preparing package for lazy loading
No methods found in "Biobase" for requests: geneNames
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
No methods found in "Biobase" for requests: geneNames
* DONE (simpleaffy)
>>>>>>>
>>>>>>> FIXING LINKS FOR simpleaffy.buildbin-libdir/simpleaffy/libs//simpleaffy.so
>>>>>>>
install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libgcc_s.1.dylib" "simpleaffy.buildbin-libdir/simpleaffy/libs//simpleaffy.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libgfortran.2.dylib" "simpleaffy.buildbin-libdir/simpleaffy/libs//simpleaffy.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libreadline.5.2.dylib" "simpleaffy.buildbin-libdir/simpleaffy/libs//simpleaffy.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libreadline.dylib" "simpleaffy.buildbin-libdir/simpleaffy/libs//simpleaffy.so"