Vega 1.8.0
Sandro Morganella
| 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/Vega | | 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=Vega.buildbin-libdir Vega_1.8.0.tar.gz'
>>>>>>>
* installing *source* package 'Vega' ...
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -mtune=native -g -O2 -Wall -pedantic -Wconversion -c vega.c -o vega.o
vega.c:251:62: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
a->elements = (node_ptr)malloc(sizeof(node)*((a->max_elems)+1));
˜ ˜˜˜˜˜˜˜˜˜˜˜˜˜˜^˜
vega.c:369:24: warning: implicit conversion turns floating-point number into integer: 'double' to 'int' [-Wconversion]
lambda_gradient = abs(lambda);
˜˜˜ ^˜˜˜˜˜
vega.c:390:48: warning: implicit conversion changes signedness: 'unsigned int' to 'int' [-Wsign-conversion]
tmp_lambda = update_priority(brks, brk_del.prev);
˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜ ˜˜˜˜˜˜˜˜^˜˜˜
vega.c:405:48: warning: implicit conversion changes signedness: 'unsigned int' to 'int' [-Wsign-conversion]
tmp_lambda = update_priority(brks, brk_del.next);
˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜ ˜˜˜˜˜˜˜˜^˜˜˜
vega.c:447:13: warning: implicit conversion changes signedness: 'unsigned int' to 'int' [-Wsign-conversion]
i=brk_del.next;
˜˜˜˜˜˜˜˜˜^˜˜˜
vega.c:348:68: warning: unused variable 'tmp_lambda2' [-Wunused-variable]
double lambda, lambda_gradient, stop_lambda_gradient, tmp_lambda, tmp_lambda2;
^
vega.c:355:13: warning: unused variable 'maxptr' [-Wunused-variable]
node max, *maxptr, tmp_node;
^
vega.c:347:6: warning: unused variable 'index' [-Wunused-variable]
int index;
^
vega.c:470:31: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
heap_insert(&s, node_create(i, (float) -(brks[i].size)));
˜˜˜˜˜˜˜˜˜˜˜ ^
vega.c:471:13: warning: implicit conversion changes signedness: 'unsigned int' to 'int' [-Wsign-conversion]
i=brks[i].next;
˜˜˜˜˜˜˜˜˜^˜˜˜
vega.c:490:45: warning: implicit conversion changes signedness: 'unsigned int' to 'int' [-Wsign-conversion]
tmp_lambda = update_priority(brks, curr.id);
˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜ ˜˜˜˜˜^˜
vega.c:493:46: warning: implicit conversion changes signedness: 'unsigned int' to 'int' [-Wsign-conversion]
tmp_lambda = update_priority(brks, next.next);
˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜ ˜˜˜˜˜^˜˜˜
vega.c:496:26: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
brks[next.id].prev = -2;
˜ ^˜
vega.c:504:21: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
brks[0].next = num_of_probes;
˜ ^˜˜˜˜˜˜˜˜˜˜˜˜
vega.c:508:18: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
curr.prev = -2;
˜ ^˜
vega.c:513:28: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
brks[prev.id].next = num_of_probes;
˜ ^˜˜˜˜˜˜˜˜˜˜˜˜
vega.c:517:47: warning: implicit conversion changes signedness: 'unsigned int' to 'int' [-Wsign-conversion]
tmp_lambda = update_priority(brks, prev.id);
˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜ ˜˜˜˜˜^˜
vega.c:529:48: warning: implicit conversion changes signedness: 'unsigned int' to 'int' [-Wsign-conversion]
tmp_lambda = update_priority(brks, prev.id);
˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜ ˜˜˜˜˜^˜
vega.c:531:48: warning: implicit conversion changes signedness: 'unsigned int' to 'int' [-Wsign-conversion]
tmp_lambda = update_priority(brks, next.id);
˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜ ˜˜˜˜˜^˜
vega.c:539:29: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
brks[next.id].prev = -2;
˜ ^˜
vega.c:540:48: warning: implicit conversion changes signedness: 'unsigned int' to 'int' [-Wsign-conversion]
tmp_lambda = update_priority(brks, curr.id);
˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜ ˜˜˜˜˜^˜
vega.c:546:49: warning: implicit conversion changes signedness: 'unsigned int' to 'int' [-Wsign-conversion]
tmp_lambda = update_priority(brks, next.next);
˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜ ˜˜˜˜˜^˜˜˜
vega.c:564:20: warning: implicit conversion changes signedness: 'unsigned int' to 'int' [-Wsign-conversion]
prev_id = brks[i].prev;
˜ ˜˜˜˜˜˜˜˜^˜˜˜
vega.c:560:64: warning: unused variable 'next_mean' [-Wunused-variable]
double lambda, first_term, second_term, prev_mean, curr_mean, next_mean;
^
vega.c:588:78: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
brks[0] = breakpoint_create(0, -1, floor(*(data)*ROUND_CNST)/ROUND_CNST, 1, -1, 1);
˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜ ^˜
vega.c:591:42: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
brks[num_of_probes] = breakpoint_create(num_of_probes, -1, -1, -1, -1, -1);
˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜ ^˜˜˜˜˜˜˜˜˜˜˜˜
vega.c:591:69: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
brks[num_of_probes] = breakpoint_create(num_of_probes, -1, -1, -1, -1, -1);
˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜ ^˜
vega.c:591:73: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
brks[num_of_probes] = breakpoint_create(num_of_probes, -1, -1, -1, -1, -1);
˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜ ^˜
vega.c:604:31: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
brks[i] = breakpoint_create(i, -tmp_lambda, floor(*(data+(i))*ROUND_CNST)/ROUND_CNST, 1, i-1, i+1);
˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜ ^
vega.c:604:93: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
brks[i] = breakpoint_create(i, -tmp_lambda, floor(*(data+(i))*ROUND_CNST)/ROUND_CNST, 1, i-1, i+1);
˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜ ˜^˜
vega.c:604:98: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
brks[i] = breakpoint_create(i, -tmp_lambda, floor(*(data+(i))*ROUND_CNST)/ROUND_CNST, 1, i-1, i+1);
˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜ ˜^˜
vega.c:606:29: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
heap_insert(b,node_create(i, -tmp_lambda));
˜˜˜˜˜˜˜˜˜˜˜ ^
32 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 Vega.so vega.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.12-bioc/meat/Vega.buildbin-libdir/Vega/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 (Vega)
>>>>>>>
>>>>>>> FIXING LINKS FOR Vega.buildbin-libdir/Vega/libs//Vega.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" "Vega.buildbin-libdir/Vega/libs//Vega.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libgfortran.2.dylib" "Vega.buildbin-libdir/Vega/libs//Vega.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" "Vega.buildbin-libdir/Vega/libs//Vega.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libreadline.dylib" "Vega.buildbin-libdir/Vega/libs//Vega.so"