Package: rama

Version: 1.9.0

Command: /Users/biocbuild/BBS/utils/build-universal.sh rama_1.9.0.tar.gz /Library/Frameworks/R.framework/Resources/bin/R rama.buildbin-libdir

RetCode: 0

Time: 10.7 seconds

Status: OK

PackageFile: rama_1.9.0.tgz

                    INSTALLATION WITH 'R CMD INSTALL rama_1.9.0.tar.gz'

* Installing to library 'rama.buildbin-libdir'
* Installing *source* package 'rama' ...
** libs
** arch - i386
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386  -msse3  -D__NO_MATH_INLINES  -fPIC  -g -O2 -Wall -std=gnu99 -march=nocona -c estimation_slice.c -o estimation_slice.o
estimation_slice.c: In function 'mcmc_shift':
estimation_slice.c:122: warning: unused variable 'SSeps_sd_new'
estimation_slice.c:121: warning: unused variable 'SSeps_sd'
estimation_slice.c:117: warning: unused variable 'pi'
estimation_slice.c:116: warning: unused variable 'SS12'
estimation_slice.c:116: warning: unused variable 'SSR2'
estimation_slice.c:116: warning: unused variable 'SSR1'
estimation_slice.c:115: warning: unused variable 'dens_epsilon_new'
estimation_slice.c:115: warning: unused variable 'dens_epsilon'
estimation_slice.c:114: warning: unused variable 'l_epsilon_new'
estimation_slice.c:114: warning: unused variable 'l_epsilon'
estimation_slice.c:113: warning: unused variable 'lambda_eps2_new'
estimation_slice.c:113: warning: unused variable 'lambda_eps1_new'
estimation_slice.c: In function 'slice_sampling_lambda_eps':
estimation_slice.c:484: warning: suggest parentheses around comparison in operand of &
estimation_slice.c:493: warning: suggest parentheses around comparison in operand of &
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386  -msse3  -D__NO_MATH_INLINES  -fPIC  -g -O2 -Wall -std=gnu99 -march=nocona -c ex_estimation_slice.c -o ex_estimation_slice.o
ex_estimation_slice.c: In function 'mcmc':
ex_estimation_slice.c:144: warning: unused variable 'old_a'
ex_estimation_slice.c:143: warning: unused variable 'old_b'
ex_estimation_slice.c:138: warning: unused variable 'sum_res2'
ex_estimation_slice.c:137: warning: unused variable 'sum_res1'
ex_estimation_slice.c:119: warning: unused variable 'dens_t_new'
ex_estimation_slice.c:119: warning: unused variable 'dens_t'
ex_estimation_slice.c:112: warning: unused variable 'pi'
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386  -msse3  -D__NO_MATH_INLINES  -fPIC  -g -O2 -Wall -std=gnu99 -march=nocona -c mean.sd.c -o mean.sd.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386  -msse3  -D__NO_MATH_INLINES  -fPIC  -g -O2 -Wall -std=gnu99 -march=nocona -c reorder.c -o reorder.o
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/i386  -msse3  -D__NO_MATH_INLINES  -fPIC  -g -O2 -Wall -std=gnu99 -march=nocona -c util.c -o util.o
util.c: In function 'qr_solve':
util.c:570: warning: implicit declaration of function 'dqrdc2_'
util.c:585: warning: implicit declaration of function 'dqrcf_'
util.c:549: warning: unused variable 'vmax'
util.c: In function 'inverse':
util.c:608: warning: unused variable 'j'
util.c: In function 'product_mat_vec':
util.c:655: warning: unused variable 'k'
util.c: In function 'slice_sampling_a':
util.c:752: warning: suggest parentheses around comparison in operand of |
util.c:752: warning: suggest parentheses around comparison in operand of &
util.c:759: warning: suggest parentheses around comparison in operand of &
util.c:766: warning: suggest parentheses around comparison in operand of &
util.c:736: warning: unused variable 'v'
util.c: In function 'slice_sampling_b':
util.c:826: warning: suggest parentheses around comparison in operand of |
util.c:826: warning: suggest parentheses around comparison in operand of &
util.c:833: warning: suggest parentheses around comparison in operand of &
util.c:840: warning: suggest parentheses around comparison in operand of &
util.c:809: warning: unused variable 'v'
util.c: In function 'slice_sampling_b2':
util.c:890: warning: suggest parentheses around comparison in operand of &
util.c:898: warning: suggest parentheses around comparison in operand of &
util.c: In function 'slice_sampling_a2':
util.c:945: warning: suggest parentheses around comparison in operand of &
util.c:953: warning: suggest parentheses around comparison in operand of &
util.c: In function 'slice_sampling_rho':
util.c:999: warning: suggest parentheses around comparison in operand of |
util.c:999: warning: suggest parentheses around comparison in operand of &
util.c:1006: warning: suggest parentheses around comparison in operand of &
util.c:1013: warning: suggest parentheses around comparison in operand of &
util.c:983: warning: unused variable 'v'
util.c: In function 'slice_sampling_rho2':
util.c:1058: warning: suggest parentheses around comparison in operand of &
util.c:1067: warning: suggest parentheses around comparison in operand of &
util.c: In function 'slice_sampling_shift':
util.c:1142: warning: suggest parentheses around comparison in operand of |
util.c:1142: warning: suggest parentheses around comparison in operand of &
util.c:1149: warning: suggest parentheses around comparison in operand of &
util.c:1156: warning: suggest parentheses around comparison in operand of &
util.c:1123: warning: unused variable 'v'
util.c: In function 'slice_sampling_shift2':
util.c:1223: warning: suggest parentheses around comparison in operand of &
util.c:1231: warning: suggest parentheses around comparison in operand of &
util.c:1205: warning: unused variable 'v'
util.c: In function 'slice_sampling_p':
util.c:1371: warning: suggest parentheses around comparison in operand of &
util.c:1379: warning: suggest parentheses around comparison in operand of &
gcc-4.0 -arch i386 -isysroot /Developer/SDKs/MacOSX10.4u.sdk -dynamiclib -Wl,-macosx_version_min -Wl,10.3 -undefined dynamic_lookup -single_module -multiply_defined suppress -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
** arch - ppc
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc  -I/usr/local/include    -fPIC  -g -O2 -Wall -c estimation_slice.c -o estimation_slice.o
estimation_slice.c: In function 'mcmc_shift':
estimation_slice.c:122: warning: unused variable 'SSeps_sd_new'
estimation_slice.c:121: warning: unused variable 'SSeps_sd'
estimation_slice.c:117: warning: unused variable 'pi'
estimation_slice.c:116: warning: unused variable 'SS12'
estimation_slice.c:116: warning: unused variable 'SSR2'
estimation_slice.c:116: warning: unused variable 'SSR1'
estimation_slice.c:115: warning: unused variable 'dens_epsilon_new'
estimation_slice.c:115: warning: unused variable 'dens_epsilon'
estimation_slice.c:114: warning: unused variable 'l_epsilon_new'
estimation_slice.c:114: warning: unused variable 'l_epsilon'
estimation_slice.c:113: warning: unused variable 'lambda_eps2_new'
estimation_slice.c:113: warning: unused variable 'lambda_eps1_new'
estimation_slice.c: In function 'slice_sampling_lambda_eps':
estimation_slice.c:484: warning: suggest parentheses around comparison in operand of &
estimation_slice.c:493: warning: suggest parentheses around comparison in operand of &
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc  -I/usr/local/include    -fPIC  -g -O2 -Wall -c ex_estimation_slice.c -o ex_estimation_slice.o
ex_estimation_slice.c: In function 'mcmc':
ex_estimation_slice.c:144: warning: unused variable 'old_a'
ex_estimation_slice.c:143: warning: unused variable 'old_b'
ex_estimation_slice.c:138: warning: unused variable 'sum_res2'
ex_estimation_slice.c:137: warning: unused variable 'sum_res1'
ex_estimation_slice.c:119: warning: unused variable 'dens_t_new'
ex_estimation_slice.c:119: warning: unused variable 'dens_t'
ex_estimation_slice.c:112: warning: unused variable 'pi'
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc  -I/usr/local/include    -fPIC  -g -O2 -Wall -c mean.sd.c -o mean.sd.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc  -I/usr/local/include    -fPIC  -g -O2 -Wall -c reorder.c -o reorder.o
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -no-cpp-precomp -I/Library/Frameworks/R.framework/Resources/include -I/Library/Frameworks/R.framework/Resources/include/ppc  -I/usr/local/include    -fPIC  -g -O2 -Wall -c util.c -o util.o
util.c: In function 'qr_solve':
util.c:570: warning: implicit declaration of function 'dqrdc2_'
util.c:585: warning: implicit declaration of function 'dqrcf_'
util.c:549: warning: unused variable 'vmax'
util.c: In function 'inverse':
util.c:608: warning: unused variable 'j'
util.c: In function 'product_mat_vec':
util.c:655: warning: unused variable 'k'
util.c: In function 'slice_sampling_a':
util.c:752: warning: suggest parentheses around comparison in operand of |
util.c:752: warning: suggest parentheses around comparison in operand of &
util.c:759: warning: suggest parentheses around comparison in operand of &
util.c:766: warning: suggest parentheses around comparison in operand of &
util.c:736: warning: unused variable 'v'
util.c: In function 'slice_sampling_b':
util.c:826: warning: suggest parentheses around comparison in operand of |
util.c:826: warning: suggest parentheses around comparison in operand of &
util.c:833: warning: suggest parentheses around comparison in operand of &
util.c:840: warning: suggest parentheses around comparison in operand of &
util.c:809: warning: unused variable 'v'
util.c: In function 'slice_sampling_b2':
util.c:890: warning: suggest parentheses around comparison in operand of &
util.c:898: warning: suggest parentheses around comparison in operand of &
util.c: In function 'slice_sampling_a2':
util.c:945: warning: suggest parentheses around comparison in operand of &
util.c:953: warning: suggest parentheses around comparison in operand of &
util.c: In function 'slice_sampling_rho':
util.c:999: warning: suggest parentheses around comparison in operand of |
util.c:999: warning: suggest parentheses around comparison in operand of &
util.c:1006: warning: suggest parentheses around comparison in operand of &
util.c:1013: warning: suggest parentheses around comparison in operand of &
util.c:983: warning: unused variable 'v'
util.c: In function 'slice_sampling_rho2':
util.c:1058: warning: suggest parentheses around comparison in operand of &
util.c:1067: warning: suggest parentheses around comparison in operand of &
util.c: In function 'slice_sampling_shift':
util.c:1142: warning: suggest parentheses around comparison in operand of |
util.c:1142: warning: suggest parentheses around comparison in operand of &
util.c:1149: warning: suggest parentheses around comparison in operand of &
util.c:1156: warning: suggest parentheses around comparison in operand of &
util.c:1123: warning: unused variable 'v'
util.c: In function 'slice_sampling_shift2':
util.c:1223: warning: suggest parentheses around comparison in operand of &
util.c:1231: warning: suggest parentheses around comparison in operand of &
util.c:1205: warning: unused variable 'v'
util.c: In function 'slice_sampling_p':
util.c:1371: warning: suggest parentheses around comparison in operand of &
util.c:1379: warning: suggest parentheses around comparison in operand of &
gcc-4.0 -arch ppc -isysroot /Developer/SDKs/MacOSX10.4u.sdk -std=gnu99 -dynamiclib -Wl,-macosx_version_min -Wl,10.3 -undefined dynamic_lookup -single_module -multiply_defined suppress -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
** R
** data
** inst
** help
Note: unmatched right brace in 'arrange.row' on or after line 23
Note: unmatched right brace in 'arrange.row' on or after line 27
Note: unmatched right brace in 'est.shift' on or after line 76
Note: unmatched right brace in 'fit.model' on or after line 95
Note: unmatched right brace in 'ls.effect' on or after line 43
Note: unmatched right brace in 'ratio.plot' on or after line 20
Note: unmatched right brace in 'ratio.plot' on or after line 24
Note: unmatched right brace in 'weight.plot' on or after line 26
Note: unmatched right brace in 'weight.plot' on or after line 30
 >>> Building/Updating help pages for package 'rama'
     Formats: text html latex example 
  arrange.row                       text    html    latex   example
  est.shift                         text    html    latex   example
  fit.model                         text    html    latex   example
  hiv                               text    html    latex
  is.row.na                         text    html    latex   example
  ls.effect                         text    html    latex   example
  mat.mean                          text    html    latex   example
  ratio.plot                        text    html    latex   example
  weight.plot                       text    html    latex   example
** building package indices ...
* DONE (rama)