destiny 2.0.9
Philipp Angerer
| Snapshot Date: 2017-04-14 17:17:13 -0400 (Fri, 14 Apr 2017) | | URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_4/madman/Rpacks/destiny | | Last Changed Rev: 128063 / Revision: 128728 | | Last Changed Date: 2017-04-05 04:33:42 -0400 (Wed, 05 Apr 2017) |
| malbec1 | Linux (Ubuntu 16.04.1 LTS) / x86_64 | OK | OK | ERROR | | |
| tokay1 | Windows Server 2012 R2 Standard / x64 | OK | OK | ERROR | OK | |
| morelia | Mac OS X Mavericks (10.9.5) / x86_64 | OK | OK | ERROR | [ OK ] | |
##############################################################################
##############################################################################
###
### Running command:
###
### rm -rf destiny.buildbin-libdir && mkdir destiny.buildbin-libdir && /Users/biocbuild/BBS/utils/build-universal.sh destiny_2.0.9.tar.gz /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R destiny.buildbin-libdir
###
##############################################################################
##############################################################################
>>>>>>>
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=destiny.buildbin-libdir destiny_2.0.9.tar.gz'
>>>>>>>
* installing *source* package ‘destiny’ ...
** libs
clang++ -std=c++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/RcppEigen/include" -g -fPIC -Wall -mtune=core2 -g -O2 -c RcppExports.cpp -o RcppExports.o
clang++ -std=c++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/RcppEigen/include" -g -fPIC -Wall -mtune=core2 -g -O2 -c censoring.cpp -o censoring.o
censoring.cpp:60:15: warning: variable 'm0' is used uninitialized whenever 'if' condition is false [-Wsometimes-uninitialized]
} else if (!one_uncertain && one_missing) {
^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
censoring.cpp:71:20: note: uninitialized use occurs here
* ( std::erfc((m0-v) / sigma) - std::erfc((m1-v) / sigma) )
^˜
censoring.cpp:60:11: note: remove the 'if' if its condition is always true
} else if (!one_uncertain && one_missing) {
^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
censoring.cpp:60:15: warning: variable 'm0' is used uninitialized whenever '&&' condition is false [-Wsometimes-uninitialized]
} else if (!one_uncertain && one_missing) {
^˜˜˜˜˜˜˜˜˜˜˜˜˜
censoring.cpp:71:20: note: uninitialized use occurs here
* ( std::erfc((m0-v) / sigma) - std::erfc((m1-v) / sigma) )
^˜
censoring.cpp:60:15: note: remove the '&&' if its condition is always true
} else if (!one_uncertain && one_missing) {
^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
censoring.cpp:55:13: note: initialize the variable 'm0' to silence this warning
double m0, m1;
^
= 0.0
censoring.cpp:60:15: warning: variable 'm1' is used uninitialized whenever 'if' condition is false [-Wsometimes-uninitialized]
} else if (!one_uncertain && one_missing) {
^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
censoring.cpp:71:48: note: uninitialized use occurs here
* ( std::erfc((m0-v) / sigma) - std::erfc((m1-v) / sigma) )
^˜
censoring.cpp:60:11: note: remove the 'if' if its condition is always true
} else if (!one_uncertain && one_missing) {
^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
censoring.cpp:60:15: warning: variable 'm1' is used uninitialized whenever '&&' condition is false [-Wsometimes-uninitialized]
} else if (!one_uncertain && one_missing) {
^˜˜˜˜˜˜˜˜˜˜˜˜˜
censoring.cpp:71:48: note: uninitialized use occurs here
* ( std::erfc((m0-v) / sigma) - std::erfc((m1-v) / sigma) )
^˜
censoring.cpp:60:15: note: remove the '&&' if its condition is always true
} else if (!one_uncertain && one_missing) {
^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
censoring.cpp:55:17: note: initialize the variable 'm1' to silence this warning
double m0, m1;
^
= 0.0
censoring.cpp:60:15: warning: variable 'use_d' is used uninitialized whenever 'if' condition is false [-Wsometimes-uninitialized]
} else if (!one_uncertain && one_missing) {
^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
censoring.cpp:66:21: note: uninitialized use occurs here
const double v = use_d ? d : c;
^˜˜˜˜
censoring.cpp:60:11: note: remove the 'if' if its condition is always true
} else if (!one_uncertain && one_missing) {
^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
censoring.cpp:60:15: warning: variable 'use_d' is used uninitialized whenever '&&' condition is false [-Wsometimes-uninitialized]
} else if (!one_uncertain && one_missing) {
^˜˜˜˜˜˜˜˜˜˜˜˜˜
censoring.cpp:66:21: note: uninitialized use occurs here
const double v = use_d ? d : c;
^˜˜˜˜
censoring.cpp:60:15: note: remove the '&&' if its condition is always true
} else if (!one_uncertain && one_missing) {
^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
censoring.cpp:18:12: note: initialize the variable 'use_d' to silence this warning
bool use_d;
^
= false
6 warnings generated.
clang++ -std=c++11 -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -I/usr/local/include/freetype2 -I/opt/X11/include -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/Rcpp/include" -I"/Library/Frameworks/R.framework/Versions/3.3/Resources/library/RcppEigen/include" -g -fPIC -Wall -mtune=core2 -g -O2 -c no_censoring.cpp -o no_censoring.o
clang++ -std=c++11 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o destiny.so RcppExports.o censoring.o no_censoring.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-3.4-bioc/meat/destiny.buildbin-libdir/destiny/libs
** R
** data
** demo
** inst
** preparing package for lazy loading
Creating a generic function for ‘nrow’ from package ‘base’ in package ‘destiny’
Creating a generic function for ‘ncol’ from package ‘base’ in package ‘destiny’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (destiny)
>>>>>>>
>>>>>>> FIXING LINKS FOR destiny.buildbin-libdir/destiny/libs//destiny.so
>>>>>>>
install_name_tool -change "/usr/local/lib/libgcc_s.1.dylib" "/Library/Frameworks/R.framework/Versions/3.3/Resources/lib/libgcc_s.1.dylib" "destiny.buildbin-libdir/destiny/libs//destiny.so"
install_name_tool -change "/usr/local/lib/libgfortran.3.dylib" "/Library/Frameworks/R.framework/Versions/3.3/Resources/lib/libgfortran.3.dylib" "destiny.buildbin-libdir/destiny/libs//destiny.so"
install_name_tool -change "/usr/local/lib/libreadline.5.2.dylib" "/Library/Frameworks/R.framework/Versions/3.3/Resources/lib/libreadline.5.2.dylib" "destiny.buildbin-libdir/destiny/libs//destiny.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.3/Resources/lib/libreadline.dylib" "destiny.buildbin-libdir/destiny/libs//destiny.so"
install_name_tool -change "/usr/local/lib/libquadmath.0.dylib" "/Library/Frameworks/R.framework/Versions/3.3/Resources/lib/libquadmath.0.dylib" "destiny.buildbin-libdir/destiny/libs//destiny.so"