survcomp 1.10.0
Benjamin Haibe-Kains , Markus Schroeder , Catharina Olsen
| 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/survcomp | | 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=survcomp.buildbin-libdir survcomp_1.10.0.tar.gz'
>>>>>>>
* installing *source* package 'survcomp' ...
** libs
clang -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -mtune=native -g -O2 -Wall -pedantic -Wconversion -c concordance.index.c -o concordance.index.o
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -mtune=native -g -O2 -Wall -pedantic -Wconversion -c foo_mrmr_ensemble_surv.cpp -o foo_mrmr_ensemble_surv.o
foo_mrmr_ensemble_surv.cpp:13:13: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
if (namat[ind_x+i]==0 && namat[ind_y+i]==0 ) {
^˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:13:34: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
if (namat[ind_x+i]==0 && namat[ind_y+i]==0 ) {
^˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:14:22: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
mean_data_x+=data[ind_x+i];
^˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:15:22: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
mean_data_y+=data[ind_y+i];
^˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:23:12: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
if(namat[ind_x+i]==0 && namat[ind_y+i]==0){
^˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:23:33: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
if(namat[ind_x+i]==0 && namat[ind_y+i]==0){
^˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:24:26: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
correlation_nom+=(data[ind_x+i]-mean_data_x)*(data[ind_y+i]-mean_data_y);
^˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:24:54: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
correlation_nom+=(data[ind_x+i]-mean_data_x)*(data[ind_y+i]-mean_data_y);
^˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:25:28: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
correlation_den_x+=(data[ind_x+i]-mean_data_x)*(data[ind_x+i]-mean_data_x);
^˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:25:56: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
correlation_den_x+=(data[ind_x+i]-mean_data_x)*(data[ind_x+i]-mean_data_x);
^˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:26:28: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
correlation_den_y+=(data[ind_y+i]-mean_data_y)*(data[ind_y+i]-mean_data_y);
^˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:26:56: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
correlation_den_y+=(data[ind_y+i]-mean_data_y)*(data[ind_y+i]-mean_data_y);
^˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:40:15: warning: variable length arrays are a C99 feature [-Wvla]
double res_ch[lenStrat];
^
foo_mrmr_ensemble_surv.cpp:41:15: warning: variable length arrays are a C99 feature [-Wvla]
double res_dh[lenStrat];
^
foo_mrmr_ensemble_surv.cpp:48:10: warning: variable length arrays are a C99 feature [-Wvla]
int ixs[lenStrat];
^
foo_mrmr_ensemble_surv.cpp:64:12: warning: variable length arrays are a C99 feature [-Wvla]
double xs[Ns];
^
foo_mrmr_ensemble_surv.cpp:72:10: warning: variable length arrays are a C99 feature [-Wvla]
int cls[Ns];
^
foo_mrmr_ensemble_surv.cpp:80:13: warning: variable length arrays are a C99 feature [-Wvla]
double sts[Ns];
^
foo_mrmr_ensemble_surv.cpp:88:10: warning: variable length arrays are a C99 feature [-Wvla]
int ses[Ns];
^
foo_mrmr_ensemble_surv.cpp:96:18: warning: variable length arrays are a C99 feature [-Wvla]
double weightss[Ns];
^
foo_mrmr_ensemble_surv.cpp:104:13: warning: variable length arrays are a C99 feature [-Wvla]
double chs[Ns];
^
foo_mrmr_ensemble_surv.cpp:105:13: warning: variable length arrays are a C99 feature [-Wvla]
double dhs[Ns];
^
foo_mrmr_ensemble_surv.cpp:106:13: warning: variable length arrays are a C99 feature [-Wvla]
double uhs[Ns];
^
foo_mrmr_ensemble_surv.cpp:107:14: warning: variable length arrays are a C99 feature [-Wvla]
double rphs[Ns];
^
foo_mrmr_ensemble_surv.cpp:193:31: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
namat_x = (int*) R_alloc(nvar*size_subset, sizeof(int));
˜˜˜˜˜˜˜ ˜˜˜˜^˜˜˜˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:194:25: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
cl2_x = (int*) R_alloc(size_subset, sizeof(int));
˜˜˜˜˜˜˜ ^˜˜˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:195:24: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
se_x = (int*) R_alloc(size_subset, sizeof(int));
˜˜˜˜˜˜˜ ^˜˜˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:196:27: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
strat_x = (int*) R_alloc(size_subset, sizeof(int));
˜˜˜˜˜˜˜ ^˜˜˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:198:34: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
data_x = (double *) R_alloc(nvar*size_subset, sizeof(double));
˜˜˜˜˜˜˜ ˜˜˜˜^˜˜˜˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:199:28: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
st_x = (double *) R_alloc(size_subset, sizeof(double));
˜˜˜˜˜˜˜ ^˜˜˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:200:33: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
weights_x = (double *) R_alloc(size_subset, sizeof(double));
˜˜˜˜˜˜˜ ^˜˜˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:204:11: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
data_x[size_subset*j+i]=data[(subset[i])+nsample*j];
^˜˜˜˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:204:34: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
data_x[size_subset*j+i]=data[(subset[i])+nsample*j];
^˜˜˜˜˜˜˜˜ ˜
foo_mrmr_ensemble_surv.cpp:204:45: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
data_x[size_subset*j+i]=data[(subset[i])+nsample*j];
^˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:205:12: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
namat_x[size_subset*j+i]=namat[(subset[i])+nsample*j];
^˜˜˜˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:205:36: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
namat_x[size_subset*j+i]=namat[(subset[i])+nsample*j];
^˜˜˜˜˜˜˜˜ ˜
foo_mrmr_ensemble_surv.cpp:205:47: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
namat_x[size_subset*j+i]=namat[(subset[i])+nsample*j];
^˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:215:14: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
mim[(i+1)*(nvar)+(i+1)]=0;
˜ ^˜˜˜
foo_mrmr_ensemble_surv.cpp:217:49: warning: implicit conversion changes signedness: 'unsigned int' to 'int' [-Wsign-conversion]
tmp=get_correlation_ensemble(data_x,namat_x,i*size_subset,j*size_subset,size_subset);
˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜ ˜^˜˜˜˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:217:50: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
tmp=get_correlation_ensemble(data_x,namat_x,i*size_subset,j*size_subset,size_subset);
˜^˜˜˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:217:63: warning: implicit conversion changes signedness: 'unsigned int' to 'int' [-Wsign-conversion]
tmp=get_correlation_ensemble(data_x,namat_x,i*size_subset,j*size_subset,size_subset);
˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜ ˜^˜˜˜˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:217:64: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
tmp=get_correlation_ensemble(data_x,namat_x,i*size_subset,j*size_subset,size_subset);
˜^˜˜˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:222:15: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
mim[(j+1)*(nvar)+i+1]= -0.5* log (1-tmp);
˜ ^˜˜˜
foo_mrmr_ensemble_surv.cpp:223:15: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
mim[(i+1)*(nvar)+j+1]=mim[(j+1)*(nvar)+i+1];
˜ ^˜˜˜
foo_mrmr_ensemble_surv.cpp:223:37: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
mim[(i+1)*(nvar)+j+1]=mim[(j+1)*(nvar)+i+1];
˜ ^˜˜˜
foo_mrmr_ensemble_surv.cpp:228:32: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
data_small =(double*) R_alloc(size_subset, sizeof(double));
˜˜˜˜˜˜˜ ^˜˜˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:191:17: warning: unused variable 'msurv_x' [-Wunused-variable]
int *namat_x, *msurv_x, *ustrat_x, *cl2_x, *se_x, *strat_x;
^
foo_mrmr_ensemble_surv.cpp:191:27: warning: unused variable 'ustrat_x' [-Wunused-variable]
int *namat_x, *msurv_x, *ustrat_x, *cl2_x, *se_x, *strat_x;
^
foo_mrmr_ensemble_surv.cpp:301:26: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
mean =(double*) R_alloc(cnt_leafs, sizeof(double));
˜˜˜˜˜˜˜ ^˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:302:24: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
sd =(double*) R_alloc(cnt_leafs, sizeof(double));
˜˜˜˜˜˜˜ ^˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:303:27: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
to_remove=(int*) R_alloc(cnt_leafs, sizeof(int));
˜˜˜˜˜˜˜ ^˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:312:26: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
prev_sel=(int*) R_alloc(max_depth, sizeof(int));
˜˜˜˜˜˜˜ ^˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:351:7: warning: unused variable 'cnt_back' [-Wunused-variable]
int cnt_back=cnt2;
^
foo_mrmr_ensemble_surv.cpp:286:7: warning: unused variable 'nsub' [-Wunused-variable]
int nsub, *prev_sel,nsamples_boot=nsamples,*to_remove;
^
foo_mrmr_ensemble_surv.cpp:389:21: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
ind=(int*) R_alloc(size_boot, sizeof(int));
˜˜˜˜˜˜˜ ^˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:390:30: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
boot_val =(double*) R_alloc(rep_boot, sizeof(double));
˜˜˜˜˜˜˜ ^˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:391:37: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
mat_info =(double*) R_alloc(((size)*(size )), sizeof(double));
˜˜˜˜˜˜˜ ˜˜˜˜˜˜^˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:402:17: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
mat_info[i+(size )*j]=0;
^˜˜˜ ˜
foo_mrmr_ensemble_surv.cpp:387:10: warning: unused variable 'mim' [-Wunused-variable]
double *mim, *boot_val, *mat_info;
^
foo_mrmr_ensemble_surv.cpp:441:17: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
jmax=var_target-1;
˜˜˜˜˜˜˜˜˜˜˜^˜
foo_mrmr_ensemble_surv.cpp:439:9: warning: unused variable 'max_val' [-Wunused-variable]
double max_val=-1000;
^
foo_mrmr_ensemble_surv.cpp:473:13: warning: variable length arrays are a C99 feature [-Wvla]
int vec_old[depth+1];
^
foo_mrmr_ensemble_surv.cpp:474:42: warning: variable length arrays are a C99 feature [-Wvla]
int mat_res [power((maxnsol+1),(depth))][depth+2];
^
foo_mrmr_ensemble_surv.cpp:474:14: warning: variable length arrays are a C99 feature [-Wvla]
int mat_res [power((maxnsol+1),(depth))][depth+2];
^
foo_mrmr_ensemble_surv.cpp:476:15: warning: variable length arrays are a C99 feature [-Wvla]
int to_remove[number_leafs];
^
foo_mrmr_ensemble_surv.cpp:467:7: warning: unused variable 'found' [-Wunused-variable]
bool found=false;
^
foo_mrmr_ensemble_surv.cpp:585:30: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
vec_mean =(double*) R_alloc(n, sizeof(double));
˜˜˜˜˜˜˜ ^
foo_mrmr_ensemble_surv.cpp:586:28: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
vec_sd =(double*) R_alloc(n, sizeof(double));
˜˜˜˜˜˜˜ ^
foo_mrmr_ensemble_surv.cpp:587:35: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
mrmr_vec_sort =(double*) R_alloc(n, sizeof(double));
˜˜˜˜˜˜˜ ^
foo_mrmr_ensemble_surv.cpp:588:40: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
vec_local_max_mean =(double*) R_alloc(max_elements, sizeof(double));
˜˜˜˜˜˜˜ ^˜˜˜˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:589:38: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
vec_local_max_sd =(double*) R_alloc(max_elements, sizeof(double));
˜˜˜˜˜˜˜ ^˜˜˜˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:590:32: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
mat_info =(double*) R_alloc((n*n), sizeof(double));
˜˜˜˜˜˜˜ ˜^˜
foo_mrmr_ensemble_surv.cpp:591:21: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
ind=(int*) R_alloc(nsamples, sizeof(int));
˜˜˜˜˜˜˜ ^˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:594:13: warning: implicit conversion changes signedness: 'unsigned int' to 'int' [-Wsign-conversion]
ind[i-1]=i-1;
˜˜^˜
foo_mrmr_ensemble_surv.cpp:598:16: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
mat_info[i+(n)*j]=0;
^ ˜
foo_mrmr_ensemble_surv.cpp:608:26: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
prev_sel=(int*) R_alloc(max_elements, sizeof(int));
˜˜˜˜˜˜˜ ^˜˜˜˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:609:22: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
nsub=(int*) R_alloc(max_elements, sizeof(int));
˜˜˜˜˜˜˜ ^˜˜˜˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:614:31: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
vec_sol_local=(int*) R_alloc(maxnsol, sizeof(int));
˜˜˜˜˜˜˜ ^˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:615:39: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
vec_sol_local_mrmr=(double*) R_alloc(maxnsol, sizeof(double));
˜˜˜˜˜˜˜ ^˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:663:92: warning: implicit conversion changes signedness: 'unsigned int' to 'int' [-Wsign-conversion]
vec_mean[k]=mrnet_onegene( mat_info, n,min(cnt,max_elements_tmp),prev_sel, nsub[0], (k+1)); vec_sd[k]=0;
˜˜˜˜˜˜˜˜˜˜˜˜˜ ˜^˜
foo_mrmr_ensemble_surv.cpp:579:21: warning: unused variable 'vec_sort' [-Wunused-variable]
double *vec_mean, *vec_sort, *vec_sd, *vec_local_max_mean, *vec_local_max_sd,tmp_val_max, *mrmr_vec_sort,*vec_sol_local_mrmr;
^
foo_mrmr_ensemble_surv.cpp:578:24: warning: unused variable 'nsamples_boot' [-Wunused-variable]
int *nsub, *prev_sel,nsamples_boot=nsamples, tmp_val_max_ind, *prev_sel_tmp,*vec_sol_local,ndelete;
^
foo_mrmr_ensemble_surv.cpp:578:66: warning: unused variable 'prev_sel_tmp' [-Wunused-variable]
int *nsub, *prev_sel,nsamples_boot=nsamples, tmp_val_max_ind, *prev_sel_tmp,*vec_sol_local,ndelete;
^
foo_mrmr_ensemble_surv.cpp:578:48: warning: unused variable 'tmp_val_max_ind' [-Wunused-variable]
int *nsub, *prev_sel,nsamples_boot=nsamples, tmp_val_max_ind, *prev_sel_tmp,*vec_sol_local,ndelete;
^
foo_mrmr_ensemble_surv.cpp:806:26: warning: implicit conversion changes signedness: 'unsigned int' to 'int' [-Wsign-conversion]
tmp_nchildren[cnt-1]=(res_tree.number_of_children(it_final));
˜ ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:825:12: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
res_all[length_res_old+k]=res_tmp[k];
^˜˜˜˜˜˜˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:828:12: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
res_all[length_res_old+k+res_tree.size()+1]=tmp_nchildren[k];
^˜˜˜˜˜˜˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:816:7: warning: unused variable 'ind' [-Wunused-variable]
int ind=0;
^
foo_mrmr_ensemble_surv.cpp:803:7: warning: unused variable 'rootdepth' [-Wunused-variable]
int rootdepth=res_tree.depth(it_final);
^
foo_mrmr_ensemble_surv.cpp:800:13: warning: unused variable 'cnt2' [-Wunused-variable]
int cnt=1,cnt2=0;
^
foo_mrmr_ensemble_surv.cpp:732:30: warning: unused variable 'res_all' [-Wunused-variable]
int *predn, *rep_boot,*res,*res_all,*res_all2, *namat;
^
foo_mrmr_ensemble_surv.cpp:732:39: warning: unused variable 'res_all2' [-Wunused-variable]
int *predn, *rep_boot,*res,*res_all,*res_all2, *namat;
^
foo_mrmr_ensemble_surv.cpp:733:6: warning: unused variable 'vec_tmp' [-Wunused-variable]
int vec_tmp;
^
foo_mrmr_ensemble_surv.cpp:742:9: warning: implicit conversion loses integer precision: 'time_t' (aka 'long') to 'unsigned int' [-Wshorten-64-to-32]
srand (time(NULL));
˜˜˜˜˜ ^˜˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:802:14: warning: implicit conversion loses integer precision: 'size_t' (aka 'unsigned long') to 'int' [-Wshorten-64-to-32]
res_tmp[0]=res_tree.size();
˜^˜˜˜˜˜˜˜˜˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:820:16: warning: variable 'res_old' is uninitialized when used here [-Wuninitialized]
res_all[k]=res_old[k];
^˜˜˜˜˜˜
foo_mrmr_ensemble_surv.cpp:815:25: note: initialize the variable 'res_old' to silence this warning
int *res_all, *res_old;
^
= NULL
96 warnings generated.
clang++ -I/Library/Frameworks/R.framework/Resources/include -DNDEBUG -I/usr/local/include -fPIC -mtune=native -g -O2 -Wall -pedantic -Wconversion -c foo_mrmr_surv.cpp -o foo_mrmr_surv.o
foo_mrmr_surv.cpp:13:13: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
if (namat[ind_x+i]==0 && namat[ind_y+i]==0 ) {
^˜˜˜˜˜
foo_mrmr_surv.cpp:13:34: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
if (namat[ind_x+i]==0 && namat[ind_y+i]==0 ) {
^˜˜˜˜˜
foo_mrmr_surv.cpp:14:22: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
mean_data_x+=data[ind_x+i];
^˜˜˜˜˜
foo_mrmr_surv.cpp:15:22: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
mean_data_y+=data[ind_y+i];
^˜˜˜˜˜
foo_mrmr_surv.cpp:23:12: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
if(namat[ind_x+i]==0 && namat[ind_y+i]==0){
^˜˜˜˜˜
foo_mrmr_surv.cpp:23:33: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
if(namat[ind_x+i]==0 && namat[ind_y+i]==0){
^˜˜˜˜˜
foo_mrmr_surv.cpp:24:26: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
correlation_nom+=(data[ind_x+i]-mean_data_x)*(data[ind_y+i]-mean_data_y);
^˜˜˜˜˜
foo_mrmr_surv.cpp:24:54: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
correlation_nom+=(data[ind_x+i]-mean_data_x)*(data[ind_y+i]-mean_data_y);
^˜˜˜˜˜
foo_mrmr_surv.cpp:25:28: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
correlation_den_x+=(data[ind_x+i]-mean_data_x)*(data[ind_x+i]-mean_data_x);
^˜˜˜˜˜
foo_mrmr_surv.cpp:25:56: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
correlation_den_x+=(data[ind_x+i]-mean_data_x)*(data[ind_x+i]-mean_data_x);
^˜˜˜˜˜
foo_mrmr_surv.cpp:26:28: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
correlation_den_y+=(data[ind_y+i]-mean_data_y)*(data[ind_y+i]-mean_data_y);
^˜˜˜˜˜
foo_mrmr_surv.cpp:26:56: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
correlation_den_y+=(data[ind_y+i]-mean_data_y)*(data[ind_y+i]-mean_data_y);
^˜˜˜˜˜
foo_mrmr_surv.cpp:46:31: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
namat_x = (int*) R_alloc(nvar*size_subset, sizeof(int));
˜˜˜˜˜˜˜ ˜˜˜˜^˜˜˜˜˜˜˜˜˜˜˜
foo_mrmr_surv.cpp:47:34: warning: implicit conversion changes signedness: 'int' to 'size_t' (aka 'unsigned long') [-Wsign-conversion]
data_x = (double *) R_alloc(nvar*size_subset, sizeof(double));
˜˜˜˜˜˜˜ ˜˜˜˜^˜˜˜˜˜˜˜˜˜˜˜
foo_mrmr_surv.cpp:51:11: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
data_x[size_subset*j+i]=data[(subset[i])+nsample*j];
^˜˜˜˜˜˜˜˜˜˜˜
foo_mrmr_surv.cpp:51:34: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
data_x[size_subset*j+i]=data[(subset[i])+nsample*j];
^˜˜˜˜˜˜˜˜ ˜
foo_mrmr_surv.cpp:51:45: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
data_x[size_subset*j+i]=data[(subset[i])+nsample*j];
^˜˜˜˜˜˜˜
foo_mrmr_surv.cpp:52:12: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
namat_x[size_subset*j+i]=namat[(subset[i])+nsample*j];
^˜˜˜˜˜˜˜˜˜˜˜
foo_mrmr_surv.cpp:52:36: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
namat_x[size_subset*j+i]=namat[(subset[i])+nsample*j];
^˜˜˜˜˜˜˜˜ ˜
foo_mrmr_surv.cpp:52:47: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
namat_x[size_subset*j+i]=namat[(subset[i])+nsample*j];
^˜˜˜˜˜˜˜
foo_mrmr_surv.cpp:57:9: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
mim[i*nvar+i]=0;
˜^˜˜˜
foo_mrmr_surv.cpp:59:40: warning: implicit conversion changes signedness: 'unsigned int' to 'int' [-Wsign-conversion]
tmp=get_correlation(data_x,namat_x,i*size_subset,j*size_subset,size_subset);
˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜ ˜^˜˜˜˜˜˜˜˜˜˜˜
foo_mrmr_surv.cpp:59:41: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
tmp=get_correlation(data_x,namat_x,i*size_subset,j*size_subset,size_subset);
˜^˜˜˜˜˜˜˜˜˜˜
foo_mrmr_surv.cpp:59:54: warning: implicit conversion changes signedness: 'unsigned int' to 'int' [-Wsign-conversion]
tmp=get_correlation(data_x,namat_x,i*size_subset,j*size_subset,size_subset);
˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜ ˜^˜˜˜˜˜˜˜˜˜˜˜
foo_mrmr_surv.cpp:59:55: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
tmp=get_correlation(data_x,namat_x,i*size_subset,j*size_subset,size_subset);
˜^˜˜˜˜˜˜˜˜˜˜
foo_mrmr_surv.cpp:64:10: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
mim[j*nvar+i]= -0.5* log (1-tmp);
˜^˜˜˜
foo_mrmr_surv.cpp:65:10: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
mim[i*nvar+j]=mim[j*nvar+i];
˜^˜˜˜
foo_mrmr_surv.cpp:65:24: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
mim[i*nvar+j]=mim[j*nvar+i];
˜^˜˜˜
foo_mrmr_surv.cpp:80:15: warning: variable length arrays are a C99 feature [-Wvla]
double res_ch[lenStrat];
^
foo_mrmr_surv.cpp:81:15: warning: variable length arrays are a C99 feature [-Wvla]
double res_dh[lenStrat];
^
foo_mrmr_surv.cpp:88:10: warning: variable length arrays are a C99 feature [-Wvla]
int ixs[lenStrat];
^
foo_mrmr_surv.cpp:104:12: warning: variable length arrays are a C99 feature [-Wvla]
double xs[Ns];
^
foo_mrmr_surv.cpp:112:10: warning: variable length arrays are a C99 feature [-Wvla]
int cls[Ns];
^
foo_mrmr_surv.cpp:120:13: warning: variable length arrays are a C99 feature [-Wvla]
double sts[Ns];
^
foo_mrmr_surv.cpp:128:10: warning: variable length arrays are a C99 feature [-Wvla]
int ses[Ns];
^
foo_mrmr_surv.cpp:136:18: warning: variable length arrays are a C99 feature [-Wvla]
double weightss[Ns];
^
foo_mrmr_surv.cpp:144:13: warning: variable length arrays are a C99 feature [-Wvla]
double chs[Ns];
^
foo_mrmr_surv.cpp:145:13: warning: variable length arrays are a C99 feature [-Wvla]
double dhs[Ns];
^
foo_mrmr_surv.cpp:146:13: warning: variable length arrays are a C99 feature [-Wvla]
double uhs[Ns];
^
foo_mrmr_surv.cpp:147:14: warning: variable length arrays are a C99 feature [-Wvla]
double rphs[Ns];
^
foo_mrmr_surv.cpp:280:6: warning: implicit conversion changes signedness: 'const int' to 'unsigned int' [-Wsign-conversion]
n = *nvar;
˜ ^˜˜˜˜
foo_mrmr_surv.cpp:301:10: warning: implicit conversion changes signedness: 'unsigned int' to 'int' [-Wsign-conversion]
ind[i]=i;
˜^
foo_mrmr_surv.cpp:304:37: warning: implicit conversion changes signedness: 'unsigned int' to 'int' [-Wsign-conversion]
build_mim_subset(mim, data, namat, n, *nsample, ind, *nsample);
˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜ ^
foo_mrmr_surv.cpp:341:19: warning: implicit conversion changes signedness: 'int' to 'unsigned int' [-Wsign-conversion]
red[l] += mim[l*n+jmax];
^˜
44 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 survcomp.so concordance.index.o foo_mrmr_ensemble_surv.o foo_mrmr_surv.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Users/biocbuild/bbs-2.12-bioc/meat/survcomp.buildbin-libdir/survcomp/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 (survcomp)
>>>>>>>
>>>>>>> FIXING LINKS FOR survcomp.buildbin-libdir/survcomp/libs//survcomp.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" "survcomp.buildbin-libdir/survcomp/libs//survcomp.so"
install_name_tool -change "/usr/local/lib/libgfortran.2.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libgfortran.2.dylib" "survcomp.buildbin-libdir/survcomp/libs//survcomp.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" "survcomp.buildbin-libdir/survcomp/libs//survcomp.so"
install_name_tool -change "/usr/local/lib/libreadline.dylib" "/Library/Frameworks/R.framework/Versions/3.0/Resources/lib/libreadline.dylib" "survcomp.buildbin-libdir/survcomp/libs//survcomp.so"