rama 1.34.0
Raphael Gottardo
| 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/rama | | 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=rama.buildbin-libdir rama_1.34.0.tar.gz'
>>>>>>>
* installing *source* package 'rama' ...
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -mtune=native -g -O2 -Wall -pedantic -Wconversion -c estimation_slice.c -o estimation_slice.o
estimation_slice.c:117:10: warning: unused variable 'pi' [-Wunused-variable]
double pi=3.14;
^
estimation_slice.c:114:10: warning: unused variable 'l_epsilon' [-Wunused-variable]
double l_epsilon=0,l_epsilon_new=0;
^
estimation_slice.c:113:10: warning: unused variable 'lambda_eps1_new' [-Wunused-variable]
double lambda_eps1_new, lambda_eps2_new;
^
estimation_slice.c:113:27: warning: unused variable 'lambda_eps2_new' [-Wunused-variable]
double lambda_eps1_new, lambda_eps2_new;
^
estimation_slice.c:115:25: warning: unused variable 'dens_epsilon_new' [-Wunused-variable]
double dens_epsilon=0,dens_epsilon_new=0;
^
estimation_slice.c:121:10: warning: unused variable 'SSeps_sd' [-Wunused-variable]
double SSeps_sd=0.;
^
estimation_slice.c:115:10: warning: unused variable 'dens_epsilon' [-Wunused-variable]
double dens_epsilon=0,dens_epsilon_new=0;
^
estimation_slice.c:114:22: warning: unused variable 'l_epsilon_new' [-Wunused-variable]
double l_epsilon=0,l_epsilon_new=0;
^
estimation_slice.c:116:24: warning: unused variable 'SS12' [-Wunused-variable]
double SSR1=0,SSR2=0,SS12=0;
^
estimation_slice.c:116:17: warning: unused variable 'SSR2' [-Wunused-variable]
double SSR1=0,SSR2=0,SS12=0;
^
estimation_slice.c:116:10: warning: unused variable 'SSR1' [-Wunused-variable]
double SSR1=0,SSR2=0,SS12=0;
^
estimation_slice.c:122:10: warning: unused variable 'SSeps_sd_new' [-Wunused-variable]
double SSeps_sd_new=0.;
^
12 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -mtune=native -g -O2 -Wall -pedantic -Wconversion -c ex_estimation_slice.c -o ex_estimation_slice.o
ex_estimation_slice.c:138:10: warning: unused variable 'sum_res2' [-Wunused-variable]
double sum_res2;
^
ex_estimation_slice.c:137:10: warning: unused variable 'sum_res1' [-Wunused-variable]
double sum_res1;
^
ex_estimation_slice.c:144:10: warning: unused variable 'old_a' [-Wunused-variable]
double old_a=0,width_a=1.;
^
ex_estimation_slice.c:119:19: warning: unused variable 'dens_t_new' [-Wunused-variable]
double dens_t=0,dens_t_new=0;
^
ex_estimation_slice.c:119:10: warning: unused variable 'dens_t' [-Wunused-variable]
double dens_t=0,dens_t_new=0;
^
ex_estimation_slice.c:143:10: warning: unused variable 'old_b' [-Wunused-variable]
double old_b=0,width_b=5.;
^
ex_estimation_slice.c:112:10: warning: unused variable 'pi' [-Wunused-variable]
double pi=3.14;
^
7 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -mtune=native -g -O2 -Wall -pedantic -Wconversion -c mean.sd.c -o mean.sd.o
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -mtune=native -g -O2 -Wall -pedantic -Wconversion -c reorder.c -o reorder.o
reorder.c:15:4: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
x=data[i][0];
˜^˜˜˜˜˜˜˜˜˜
reorder.c:16:4: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
y=data[i][1];
˜^˜˜˜˜˜˜˜˜˜
2 warnings generated.
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -mtune=native -g -O2 -Wall -pedantic -Wconversion -c util.c -o util.o
util.c:574:11: warning: unused variable 'k' [-Wunused-variable]
int i,j,k;
^
util.c:629:13: warning: & has lower precedence than >; > will be evaluated first [-Wparentheses]
while(K>0 & (z<log_f_L | z<log_f_R))
˜˜˜˜^
util.c:629:13: note: place parentheses around the '>' expression to silence this warning
while(K>0 & (z<log_f_L | z<log_f_R))
^
( )
util.c:629:13: note: place parentheses around the & expression to evaluate it first
while(K>0 & (z<log_f_L | z<log_f_R))
^
( )
util.c:613:13: warning: unused variable 'v' [-Wunused-variable]
double u, v, L, R, z, a1;
^
util.c:703:13: warning: & has lower precedence than >; > will be evaluated first [-Wparentheses]
while(K>0 & (z<log_f_L | z<log_f_R))
˜˜˜˜^
util.c:703:13: note: place parentheses around the '>' expression to silence this warning
while(K>0 & (z<log_f_L | z<log_f_R))
^
( )
util.c:703:13: note: place parentheses around the & expression to evaluate it first
while(K>0 & (z<log_f_L | z<log_f_R))
^
( )
util.c:686:13: warning: unused variable 'v' [-Wunused-variable]
double u, v, L, R, z, b1;
^
util.c:876:13: warning: & has lower precedence than >; > will be evaluated first [-Wparentheses]
while(K>0 & (z<log_f_L | z<log_f_R))
˜˜˜˜^
util.c:876:13: note: place parentheses around the '>' expression to silence this warning
while(K>0 & (z<log_f_L | z<log_f_R))
^
( )
util.c:876:13: note: place parentheses around the & expression to evaluate it first
while(K>0 & (z<log_f_L | z<log_f_R))
^
( )
util.c:860:13: warning: unused variable 'v' [-Wunused-variable]
double u, v, L, R, z, rho_new;
^
util.c:1002:9: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
int K=p;
˜ ^
util.c:1019:13: warning: & has lower precedence than >; > will be evaluated first [-Wparentheses]
while(K>0 & (z<log_f_L | z<log_f_R))
˜˜˜˜^
util.c:1019:13: note: place parentheses around the '>' expression to silence this warning
while(K>0 & (z<log_f_L | z<log_f_R))
^
( )
util.c:1019:13: note: place parentheses around the & expression to evaluate it first
while(K>0 & (z<log_f_L | z<log_f_R))
^
( )
util.c:1000:13: warning: unused variable 'v' [-Wunused-variable]
double u, v, L, R, z, shift_new;
^
util.c:1082:13: warning: unused variable 'v' [-Wunused-variable]
double u, v, L, R, z, shift_new;
^
11 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 rama.so estimation_slice.o ex_estimation_slice.o mean.sd.o reorder.o util.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.12-bioc/meat/rama.buildbin-libdir/rama/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 (rama)
>>>>>>>
>>>>>>> FIXING LINKS FOR rama.buildbin-libdir/rama/libs//rama.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" "rama.buildbin-libdir/rama/libs//rama.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libgfortran.2.dylib" "rama.buildbin-libdir/rama/libs//rama.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" "rama.buildbin-libdir/rama/libs//rama.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libreadline.dylib" "rama.buildbin-libdir/rama/libs//rama.so"