CNORdt 1.2.0
A. MacNamara
| 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/CNORdt | | 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=CNORdt.buildbin-libdir CNORdt_1.2.0.tar.gz'
>>>>>>>
* installing *source* package 'CNORdt' ...
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -mtune=native -g -O2 -Wall -pedantic -Wconversion -c simulatorDT.c -o simulatorDT.o
simulatorDT.c:63:24: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
maxIx = (int*) malloc(nReacs * sizeof(int));
^˜˜˜˜˜ ˜
simulatorDT.c:70:31: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
indexStimuli = (int*) malloc(nStimuli * sizeof(int));
^˜˜˜˜˜˜˜ ˜
simulatorDT.c:77:34: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
indexInhibitors = (int*) malloc(nInhibitors * sizeof(int));
^˜˜˜˜˜˜˜˜˜˜ ˜
simulatorDT.c:84:29: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
finalCube = (int**) malloc(nReacs * sizeof(int*));
^˜˜˜˜˜ ˜
simulatorDT.c:86:35: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
finalCube[i] = (int*) malloc(nMaxInputs * sizeof(int));
^˜˜˜˜˜˜˜˜˜ ˜
simulatorDT.c:94:25: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
ixNeg = (int**) malloc(nReacs * sizeof(int*));
^˜˜˜˜˜ ˜
simulatorDT.c:96:31: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
ixNeg[i] = (int*) malloc(nMaxInputs * sizeof(int));
^˜˜˜˜˜˜˜˜˜ ˜
simulatorDT.c:104:30: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
ignoreCube = (int**) malloc(nReacs * sizeof(int*));
^˜˜˜˜˜ ˜
simulatorDT.c:106:36: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
ignoreCube[i] = (int*) malloc(nMaxInputs * sizeof(int));
^˜˜˜˜˜˜˜˜˜ ˜
simulatorDT.c:114:35: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
valueInhibitors = (int**) malloc(nCond * sizeof(int*));
^˜˜˜˜ ˜
simulatorDT.c:116:41: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
valueInhibitors[i] = (int*) malloc(nInhibitors * sizeof(int));
^˜˜˜˜˜˜˜˜˜˜ ˜
simulatorDT.c:124:32: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
valueStimuli = (int**) malloc(nCond * sizeof(int*));
^˜˜˜˜ ˜
simulatorDT.c:126:38: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
valueStimuli[i] = (int*) malloc(nStimuli * sizeof(int));
^˜˜˜˜˜˜˜ ˜
simulatorDT.c:134:27: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
prevSim = (int**) malloc(nCond * sizeof(int*));
^˜˜˜˜ ˜
simulatorDT.c:136:33: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
prevSim[i] = (int*) malloc(nSpecies * sizeof(int));
^˜˜˜˜˜˜˜ ˜
simulatorDT.c:243:19: warning: equality comparison with extraneous parentheses [-Wparentheses-equality]
if((track_cond == nCond)) {
˜˜˜˜˜˜˜˜˜˜˜^˜˜˜˜˜˜˜
simulatorDT.c:243:19: note: remove extraneous parentheses around the comparison to silence this warning
if((track_cond == nCond)) {
˜ ^ ˜
simulatorDT.c:243:19: note: use '=' to turn this equality comparison into an assignment
if((track_cond == nCond)) {
^˜
=
simulatorDT.c:55:6: warning: unused variable 'nTimes' [-Wunused-variable]
int nTimes = INTEGER(nTimes_in)[0];
^
simulatorDT.c:53:6: warning: unused variable 'nSignals' [-Wunused-variable]
int nSignals = INTEGER(nSignals_in)[0];
^
18 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 CNORdt.so simulatorDT.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.12-bioc/meat/CNORdt.buildbin-libdir/CNORdt/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 (CNORdt)
>>>>>>>
>>>>>>> FIXING LINKS FOR CNORdt.buildbin-libdir/CNORdt/libs//CNORdt.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" "CNORdt.buildbin-libdir/CNORdt/libs//CNORdt.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libgfortran.2.dylib" "CNORdt.buildbin-libdir/CNORdt/libs//CNORdt.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" "CNORdt.buildbin-libdir/CNORdt/libs//CNORdt.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libreadline.dylib" "CNORdt.buildbin-libdir/CNORdt/libs//CNORdt.so"