netresponse 1.12.0
Leo Lahti
| 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/netresponse | | 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 | WARNINGS | [ OK ] |
>>>>>>>
>>>>>>> INSTALLATION WITH 'R CMD INSTALL --preclean --no-multiarch --library=netresponse.buildbin-libdir netresponse_1.12.0.tar.gz'
>>>>>>>
* installing *source* package 'netresponse' ...
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -mtune=native -g -O2 -Wall -pedantic -Wconversion -c netresponse.c -o netresponse.o
netresponse.c:147:37: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
*U_hat_table=(double ***)malloc(dim2 * sizeof(double*));
^˜˜˜ ˜
netresponse.c:148:31: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
*data2_int=(int **)malloc(dim2 * sizeof(int*));
^˜˜˜ ˜
netresponse.c:151:38: warning: implicit conversion changes signedness: 'long' to 'unsigned long' [-Wsign-conversion]
(*data2_int)[j] = (int *)malloc(datalen * sizeof(int));
^˜˜˜˜˜˜ ˜
netresponse.c:152:40: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
(*U_hat_table)[j]=(double**)malloc(ncentroids * sizeof(double*));
^˜˜˜˜˜˜˜˜˜ ˜
netresponse.c:154:47: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
(*U_hat_table)[j][i] =(double *)malloc(((int)(Ns[j]))*sizeof(double));
^˜˜˜˜˜˜˜˜˜˜˜ ˜
netresponse.c:221:50: warning: implicit conversion turns floating-point number into integer: 'double' to 'R_xlen_t' (aka 'long') [-Wconversion]
PROTECT(U_hat_j_SEXP = NEW_NUMERIC(ncentroids*Ns[j]));
˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜^˜˜˜˜˜˜
/Library/Frameworks/R.framework/Resources/include/Rdefines.h:73:45: note: expanded from macro 'NEW_NUMERIC'
#define NEW_NUMERIC(n) allocVector(REALSXP,n)
^
/Library/Frameworks/R.framework/Resources/include/Rinternals.h:547:31: note: expanded from macro 'PROTECT'
#define PROTECT(s) Rf_protect(s)
^
netresponse.c:264:15: warning: unused variable 'prior_fields' [-Wunused-variable]
const char *prior_fields[]={"Mumu","S2mu",
^
netresponse.c:530:32: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
*Temp = (double **)malloc(ncentroids * sizeof(double*));
^˜˜˜˜˜˜˜˜˜ ˜
netresponse.c:532:34: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
*S2_x = (double **)malloc(ncentroids * sizeof(double*));
^˜˜˜˜˜˜˜˜˜ ˜
netresponse.c:533:34: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
*Ksi_log = (double **)malloc(ncentroids * sizeof(double*));
^˜˜˜˜˜˜˜˜˜ ˜
netresponse.c:536:37: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
*U_hat_table=(double ***)malloc(dim2 * sizeof(double*));
^˜˜˜ ˜
netresponse.c:537:31: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
*data2_int=(int **)malloc(dim2 * sizeof(int*));
^˜˜˜ ˜
netresponse.c:540:38: warning: implicit conversion changes signedness: 'long' to 'unsigned long' [-Wsign-conversion]
(*Temp)[i] = (double *)malloc(datalen * sizeof(double));
^˜˜˜˜˜˜ ˜
netresponse.c:542:40: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
(*S2_x)[i] = (double *)malloc(dim1 * sizeof(double));
^˜˜˜ ˜
netresponse.c:543:40: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
(*Ksi_log)[i] = (double *)malloc(dim1 * sizeof(double));
^˜˜˜ ˜
netresponse.c:547:38: warning: implicit conversion changes signedness: 'long' to 'unsigned long' [-Wsign-conversion]
(*data2_int)[j] = (int *)malloc(datalen * sizeof(int));
^˜˜˜˜˜˜ ˜
netresponse.c:548:40: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
(*U_hat_table)[j]=(double**)malloc(ncentroids * sizeof(double*));
^˜˜˜˜˜˜˜˜˜ ˜
netresponse.c:550:47: warning: implicit conversion changes signedness: 'int' to 'unsigned long' [-Wsign-conversion]
(*U_hat_table)[j][i] =(double *)malloc(((int)(Ns[j]))*sizeof(double));
^˜˜˜˜˜˜˜˜˜˜˜ ˜
netresponse.c:629:30: warning: implicit conversion loses integer precision: 'long' to 'int' [-Wshorten-64-to-32]
log_p_of_z_given_other_z_c(datalen, ncentroids, post_gamma, log_lambda);
˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜ ^˜˜˜˜˜˜
netresponse.c:686:6: warning: variable 'KsiBeta' is used uninitialized whenever 'if' condition is false [-Wsometimes-uninitialized]
if(dim1) {
^˜˜˜
netresponse.c:714:36: note: uninitialized use occurs here
AlphaKsi, BetaKsi, KsiAlpha, KsiBeta,
^˜˜˜˜˜˜
netresponse.c:686:3: note: remove the 'if' if its condition is always true
if(dim1) {
^˜˜˜˜˜˜˜˜
netresponse.c:656:45: note: initialize the variable 'KsiBeta' to silence this warning
*AlphaKsi, *BetaKsi, *KsiAlpha, *KsiBeta, *U_p, *prior_alpha,
^
= NULL
netresponse.c:696:6: warning: variable 'U_p' is used uninitialized whenever 'if' condition is false [-Wsometimes-uninitialized]
if(dim2) {
^˜˜˜
netresponse.c:716:7: note: uninitialized use occurs here
U_p, U_hat,
^˜˜
netresponse.c:696:3: note: remove the 'if' if its condition is always true
if(dim2) {
^˜˜˜˜˜˜˜˜
netresponse.c:656:51: note: initialize the variable 'U_p' to silence this warning
*AlphaKsi, *BetaKsi, *KsiAlpha, *KsiBeta, *U_p, *prior_alpha,
^
= NULL
netresponse.c:686:6: warning: variable 'BetaKsi' is used uninitialized whenever 'if' condition is false [-Wsometimes-uninitialized]
if(dim1) {
^˜˜˜
netresponse.c:714:17: note: uninitialized use occurs here
AlphaKsi, BetaKsi, KsiAlpha, KsiBeta,
^˜˜˜˜˜˜
netresponse.c:686:3: note: remove the 'if' if its condition is always true
if(dim1) {
^˜˜˜˜˜˜˜˜
netresponse.c:656:24: note: initialize the variable 'BetaKsi' to silence this warning
*AlphaKsi, *BetaKsi, *KsiAlpha, *KsiBeta, *U_p, *prior_alpha,
^
= NULL
netresponse.c:686:6: warning: variable 'KsiAlpha' is used uninitialized whenever 'if' condition is false [-Wsometimes-uninitialized]
if(dim1) {
^˜˜˜
netresponse.c:714:26: note: uninitialized use occurs here
AlphaKsi, BetaKsi, KsiAlpha, KsiBeta,
^˜˜˜˜˜˜˜
netresponse.c:686:3: note: remove the 'if' if its condition is always true
if(dim1) {
^˜˜˜˜˜˜˜˜
netresponse.c:656:35: note: initialize the variable 'KsiAlpha' to silence this warning
*AlphaKsi, *BetaKsi, *KsiAlpha, *KsiBeta, *U_p, *prior_alpha,
^
= NULL
netresponse.c:686:6: warning: variable 'S2mu' is used uninitialized whenever 'if' condition is false [-Wsometimes-uninitialized]
if(dim1) {
^˜˜˜
netresponse.c:713:27: note: uninitialized use occurs here
vdp_mk_log_lambda(Mumu, S2mu, Mubar, Mutilde,
^˜˜˜
netresponse.c:686:3: note: remove the 'if' if its condition is always true
if(dim1) {
^˜˜˜˜˜˜˜˜
netresponse.c:655:22: note: initialize the variable 'S2mu' to silence this warning
double *Mumu, *S2mu, *Mubar, *Mutilde,
^
= NULL
netresponse.c:686:6: warning: variable 'Mumu' is used uninitialized whenever 'if' condition is false [-Wsometimes-uninitialized]
if(dim1) {
^˜˜˜
netresponse.c:713:21: note: uninitialized use occurs here
vdp_mk_log_lambda(Mumu, S2mu, Mubar, Mutilde,
^˜˜˜
netresponse.c:686:3: note: remove the 'if' if its condition is always true
if(dim1) {
^˜˜˜˜˜˜˜˜
netresponse.c:655:15: note: initialize the variable 'Mumu' to silence this warning
double *Mumu, *S2mu, *Mubar, *Mutilde,
^
= NULL
netresponse.c:686:6: warning: variable 'AlphaKsi' is used uninitialized whenever 'if' condition is false [-Wsometimes-uninitialized]
if(dim1) {
^˜˜˜
netresponse.c:714:7: note: uninitialized use occurs here
AlphaKsi, BetaKsi, KsiAlpha, KsiBeta,
^˜˜˜˜˜˜˜
netresponse.c:686:3: note: remove the 'if' if its condition is always true
if(dim1) {
^˜˜˜˜˜˜˜˜
netresponse.c:656:14: note: initialize the variable 'AlphaKsi' to silence this warning
*AlphaKsi, *BetaKsi, *KsiAlpha, *KsiBeta, *U_p, *prior_alpha,
^
= NULL
netresponse.c:696:6: warning: variable 'U_hat' is used uninitialized whenever 'if' condition is false [-Wsometimes-uninitialized]
if(dim2) {
^˜˜˜
netresponse.c:716:12: note: uninitialized use occurs here
U_p, U_hat,
^˜˜˜˜
netresponse.c:696:3: note: remove the 'if' if its condition is always true
if(dim2) {
^˜˜˜˜˜˜˜˜
netresponse.c:661:14: note: initialize the variable 'U_hat' to silence this warning
SEXP* U_hat;
^
= NULL
netresponse.c:686:6: warning: variable 'Mutilde' is used uninitialized whenever 'if' condition is false [-Wsometimes-uninitialized]
if(dim1) {
^˜˜˜
netresponse.c:713:40: note: uninitialized use occurs here
vdp_mk_log_lambda(Mumu, S2mu, Mubar, Mutilde,
^˜˜˜˜˜˜
netresponse.c:686:3: note: remove the 'if' if its condition is always true
if(dim1) {
^˜˜˜˜˜˜˜˜
netresponse.c:655:40: note: initialize the variable 'Mutilde' to silence this warning
double *Mumu, *S2mu, *Mubar, *Mutilde,
^
= NULL
netresponse.c:686:6: warning: variable 'Mubar' is used uninitialized whenever 'if' condition is false [-Wsometimes-uninitialized]
if(dim1) {
^˜˜˜
netresponse.c:713:33: note: uninitialized use occurs here
vdp_mk_log_lambda(Mumu, S2mu, Mubar, Mutilde,
^˜˜˜˜
netresponse.c:686:3: note: remove the 'if' if its condition is always true
if(dim1) {
^˜˜˜˜˜˜˜˜
netresponse.c:655:30: note: initialize the variable 'Mubar' to silence this warning
double *Mumu, *S2mu, *Mubar, *Mutilde,
^
= NULL
29 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 netresponse.so netresponse.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.12-bioc/meat/netresponse.buildbin-libdir/netresponse/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 (netresponse)
>>>>>>>
>>>>>>> FIXING LINKS FOR netresponse.buildbin-libdir/netresponse/libs//netresponse.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" "netresponse.buildbin-libdir/netresponse/libs//netresponse.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libgfortran.2.dylib" "netresponse.buildbin-libdir/netresponse/libs//netresponse.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" "netresponse.buildbin-libdir/netresponse/libs//netresponse.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libreadline.dylib" "netresponse.buildbin-libdir/netresponse/libs//netresponse.so"