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BioC 3.1: CHECK report for predictionet on zin2

This page was generated on 2015-10-09 09:24:44 -0700 (Fri, 09 Oct 2015).

Package 739/1024HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
predictionet 1.14.0
Benjamin Haibe-Kains , Catharina Olsen
Snapshot Date: 2015-10-08 17:20:21 -0700 (Thu, 08 Oct 2015)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_1/madman/Rpacks/predictionet
Last Changed Rev: 102591 / Revision: 109384
Last Changed Date: 2015-04-16 12:42:01 -0700 (Thu, 16 Apr 2015)
zin2 Linux (Ubuntu 14.04.2 LTS) / x86_64  NotNeeded  OK [ OK ]UNNEEDED, same version exists in internal repository
moscato2 Windows Server 2008 R2 Enterprise SP1 (64-bit) / x64 ...NOT SUPPORTED...NOT SUPPORTED...NOT SUPPORTED...
petty Mac OS X Snow Leopard (10.6.8) / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository
morelia Mac OS X Mavericks (10.9.5) / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: predictionet
Version: 1.14.0
Command: /home/biocbuild/bbs-3.1-bioc/R/bin/R CMD check --no-vignettes --timings predictionet_1.14.0.tar.gz
StartedAt: 2015-10-09 04:25:14 -0700 (Fri, 09 Oct 2015)
EndedAt: 2015-10-09 04:25:51 -0700 (Fri, 09 Oct 2015)
EllapsedTime: 37.8 seconds
RetCode: 0
Status:  OK 
CheckDir: predictionet.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.1-bioc/R/bin/R CMD check --no-vignettes --timings predictionet_1.14.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.1-bioc/meat/predictionet.Rcheck’
* using R version 3.2.2 (2015-08-14)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘predictionet/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘predictionet’ version ‘1.14.0’
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... NOTE
Found the following hidden files and directories:
  .BBSoptions
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘predictionet’ can be installed ... [6s/6s] OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... NOTE
Packages in Depends field not imported from:
  ‘catnet’ ‘igraph’
  These packages need to be imported from (in the NAMESPACE file)
  for when this namespace is loaded but not attached.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
.exportGML: no visible global function definition for ‘vcount’
.exportGML: no visible global function definition for ‘ecount’
netinf: no visible global function definition for ‘cnMatParents’
netinf2gml: no visible global function definition for ‘ecount’
netinf2gml: no visible global function definition for ‘vcount’
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
File ‘predictionet/libs/predictionet.so’:
  Found ‘rand’, possibly from ‘rand’ (C)
    Object: ‘mrnet_ensemble_standalone.o’
  Found ‘srand’, possibly from ‘srand’ (C)
    Object: ‘mrnet_ensemble_standalone.o’

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor the system RNG.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
* checking sizes of PDF files under ‘inst/doc’ ... OK
* checking installed files from ‘inst/doc’ ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... [3s/3s] OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 4 NOTEs
See
  ‘/home/biocbuild/bbs-3.1-bioc/meat/predictionet.Rcheck/00check.log’
for details.

predictionet.Rcheck/00install.out:

* installing *source* package ‘predictionet’ ...
** libs
g++ -I/home/biocbuild/bbs-3.1-bioc/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -Wall -c foo_mrmr.cpp -o foo_mrmr.o
foo_mrmr.cpp: In function ‘double get_correlation(double*, int*, int, int, int)’:
foo_mrmr.cpp:13:28: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for( unsigned int i=0; i< size; ++i ) {
                            ^
foo_mrmr.cpp:23:28: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for( unsigned int i=0; i< size; ++i ) {  
                            ^
foo_mrmr.cpp: In function ‘void build_mim_subset(double*, double*, int*, int, int, int*, int)’:
foo_mrmr.cpp:50:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(unsigned int i=0; i< size_subset; ++i){
                           ^
foo_mrmr.cpp:51:28: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(unsigned int j=0; j< nvar; ++j){
                            ^
foo_mrmr.cpp:57:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(unsigned int i=0; i< nvar; ++i){
                           ^
foo_mrmr.cpp:59:30: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(unsigned int j=i+1; j< nvar; ++j){
                              ^
g++ -I/home/biocbuild/bbs-3.1-bioc/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -Wall -c mrnet_adapted.cpp -o mrnet_adapted.o
mrnet_adapted.cpp: In function ‘SEXPREC* mrnet_adapted(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’:
mrnet_adapted.cpp:58:28: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(unsigned int i=0;i < *nsample; ++i){
                            ^
mrnet_adapted.cpp:103:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
    for( int l=0; l<n; ++l )  
                    ^
mrnet_adapted.cpp:131:28: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(unsigned int j=0; j< *npredn; ++j ) {
                            ^
g++ -I/home/biocbuild/bbs-3.1-bioc/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -Wall -c mrnet_adapted2.cpp -o mrnet_adapted2.o
mrnet_adapted2.cpp: In function ‘SEXPREC* mrnet_adapted2(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’:
mrnet_adapted2.cpp:62:28: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(unsigned int i=0;i < *nsample; ++i){
                            ^
mrnet_adapted2.cpp:121:20: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
    for( int l=0; l<n; ++l )  
                    ^
mrnet_adapted2.cpp:185:28: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(unsigned int j=0; j< *npredn; ++j ) {
                            ^
g++ -I/home/biocbuild/bbs-3.1-bioc/R/include -DNDEBUG  -I/usr/local/include    -fpic  -g -O2  -Wall -c mrnet_ensemble_standalone.cpp -o mrnet_ensemble_standalone.o
mrnet_ensemble_standalone.cpp: In function ‘void remove_equiv_subtrees(tree<int>&, tree<double>&)’:
mrnet_ensemble_standalone.cpp:24:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(unsigned int j=0;j< length_vec;++j){
                          ^
mrnet_ensemble_standalone.cpp:42:28: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
    for(unsigned int j=0;j< length_vec;++j){
                            ^
mrnet_ensemble_standalone.cpp:47:50: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(unsigned int j=0;j< (res.depth(it_main)-1);++j){
                                                  ^
mrnet_ensemble_standalone.cpp:60:30: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
      for(unsigned int j=0;j< length_vec;++j){
                              ^
mrnet_ensemble_standalone.cpp:65:30: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
      for(unsigned int j=0;j< length_vec && equiv;++j){
                              ^
mrnet_ensemble_standalone.cpp: In function ‘int verify_equivalentset_nparents(tree<int>&, tree<int>::pre_order_iterator, tree<int>::pre_order_iterator, tree<double>&, int)’:
mrnet_ensemble_standalone.cpp:111:7: warning: unused variable ‘found’ [-Wunused-variable]
  bool found=false;
       ^
mrnet_ensemble_standalone.cpp: In function ‘int verify_equivalentset(tree<int>&, tree<int>::pre_order_iterator, tree<int>::pre_order_iterator, int, int*, int*)’:
mrnet_ensemble_standalone.cpp:223:6: warning: variable ‘to_remove’ set but not used [-Wunused-but-set-variable]
  int to_remove[number_leafs];
      ^
mrnet_ensemble_standalone.cpp:283:6: warning: unused variable ‘rootdepth’ [-Wunused-variable]
  int rootdepth=tr.depth(it);
      ^
mrnet_ensemble_standalone.cpp: In function ‘void build_tree_int(tree<int>&, tree<int>::pre_order_iterator, tree<int>::pre_order_iterator, int*, int, int)’:
mrnet_ensemble_standalone.cpp:304:6: warning: unused variable ‘rootdepth’ [-Wunused-variable]
  int rootdepth=tr.depth(it);
      ^
mrnet_ensemble_standalone.cpp: In function ‘void bootstrap_mrmr_fix(double&, double&, double*, int*, int, int, int, int, int, int, int, int*)’:
mrnet_ensemble_standalone.cpp:384:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(unsigned int i=1;i<= nsamples;++i){
                           ^
mrnet_ensemble_standalone.cpp:377:16: warning: unused variable ‘boot_val’ [-Wunused-variable]
  double *mim, *boot_val;
                ^
mrnet_ensemble_standalone.cpp: In function ‘void bootstrap_mrmr(double&, double&, double*, int*, int, int, int, int, int, int, int, int*)’:
mrnet_ensemble_standalone.cpp:414:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(unsigned int k=0; k< rep_boot; ++k){
                           ^
mrnet_ensemble_standalone.cpp:417:28: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(unsigned int i=1;i<= size_boot;++i){
                            ^
mrnet_ensemble_standalone.cpp:426:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(unsigned int i=0;i< rep_boot;++i){
                          ^
mrnet_ensemble_standalone.cpp:433:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(unsigned int i=0;i< rep_boot;++i){
                          ^
mrnet_ensemble_standalone.cpp: In function ‘void bootstrap_tree(tree<int>&, tree<double>&, double*, int*, int, int, int)’:
mrnet_ensemble_standalone.cpp:507:7: warning: unused variable ‘cnt_back’ [-Wunused-variable]
   int cnt_back=cnt2;
       ^
mrnet_ensemble_standalone.cpp:442:7: warning: unused variable ‘nsub’ [-Wunused-variable]
  int  nsub, *prev_sel,nsamples_boot=nsamples,*to_remove;
       ^
mrnet_ensemble_standalone.cpp: In function ‘double mrnet_onegene(double*, int, int, int*, int, int)’:
mrnet_ensemble_standalone.cpp:569:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(unsigned int j=0;j< nbvar; j++){
                           ^
mrnet_ensemble_standalone.cpp:558:15: warning: variable ‘jmax’ set but not used [-Wunused-but-set-variable]
  unsigned int jmax;
               ^
mrnet_ensemble_standalone.cpp:560:9: warning: unused variable ‘max_val’ [-Wunused-variable]
  double max_val=-1000;
         ^
mrnet_ensemble_standalone.cpp: In function ‘void mrmr_ensemble_one_gene(tree<int>&, tree<int>::pre_order_iterator, double*, int*, int, int, int, int, int, int, double)’:
mrnet_ensemble_standalone.cpp:600:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(unsigned int k=0;k< max_elements ;++k){
                          ^
mrnet_ensemble_standalone.cpp:658:47: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
      for (unsigned int i=0;i<max_elements_tmp-1;++i){ 
                                               ^
mrnet_ensemble_standalone.cpp:665:29: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(unsigned int k=0;k< n;++k){
                             ^
mrnet_ensemble_standalone.cpp:668:28: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(unsigned int k=0;k<max_elements_tmp;++k){
                            ^
mrnet_ensemble_standalone.cpp:672:29: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
     for(unsigned int k=0;k< n;++k){
                             ^
mrnet_ensemble_standalone.cpp:677:22: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
      if(k!=(nsub[0]-1) && vec_mean[k]>max_mrmr){
                      ^
mrnet_ensemble_standalone.cpp:689:30: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
      for(unsigned int k=0;k< n;++k){
                              ^
mrnet_ensemble_standalone.cpp:586:48: warning: unused variable ‘nprev_sel’ [-Wunused-variable]
  int  *nsub, *prev_sel,nsamples_boot=nsamples, nprev_sel=0; 
                                                ^
mrnet_ensemble_standalone.cpp:587:10: warning: variable ‘res_vec’ set but not used [-Wunused-but-set-variable]
  double *res_vec, *vec_mean, *vec_sort, *vec_sd,  *vec_local_max_mean, *vec_local_max_sd;;
          ^
mrnet_ensemble_standalone.cpp: In function ‘SEXPREC* mrmr_ensemble(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’:
mrnet_ensemble_standalone.cpp:760:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(unsigned int i=0;i< *npredn;++i){
                           ^
mrnet_ensemble_standalone.cpp:799:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
    for(unsigned int k=0;k<length_res_old;k++){
                           ^
mrnet_ensemble_standalone.cpp:813:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(unsigned int k=0;k<length_res;k++){
                          ^
mrnet_ensemble_standalone.cpp:819:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   if(i==(*npredn-1)){
                   ^
mrnet_ensemble_standalone.cpp:822:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
    for(unsigned int k=0;k<length_res;k++){
                           ^
mrnet_ensemble_standalone.cpp:777:13: warning: unused variable ‘cnt2’ [-Wunused-variable]
   int cnt=1,cnt2=0;
             ^
mrnet_ensemble_standalone.cpp:780:7: warning: unused variable ‘rootdepth’ [-Wunused-variable]
   int rootdepth=res_tree.depth(it_final);
       ^
mrnet_ensemble_standalone.cpp:794:7: warning: unused variable ‘ind’ [-Wunused-variable]
   int ind=0;
       ^
mrnet_ensemble_standalone.cpp:722:30: warning: unused variable ‘res_all’ [-Wunused-variable]
  int *predn, *rep_boot,*res,*res_all,*res_all2,*namat;
                              ^
mrnet_ensemble_standalone.cpp:722:39: warning: unused variable ‘res_all2’ [-Wunused-variable]
  int *predn, *rep_boot,*res,*res_all,*res_all2,*namat;
                                       ^
mrnet_ensemble_standalone.cpp:723:6: warning: unused variable ‘vec_tmp’ [-Wunused-variable]
  int vec_tmp;
      ^
mrnet_ensemble_standalone.cpp: In function ‘void mrmr_ensemble_one_gene_remove(tree<int>&, tree<int>::pre_order_iterator, double*, int*, int, int, int, int, int, int, double)’:
mrnet_ensemble_standalone.cpp:860:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(unsigned int k=0;k< max_elements ;++k){
                          ^
mrnet_ensemble_standalone.cpp:904:29: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
    for (unsigned int i=0;i<=max_depth;++i){ 
                             ^
mrnet_ensemble_standalone.cpp:912:28: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
    for(unsigned int k=0;k< n;++k){
                            ^
mrnet_ensemble_standalone.cpp:915:69: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
    for(unsigned int k=0;k<=max(res_tmp_new.depth(it_local),max_depth) ;++k){
                                                                     ^
mrnet_ensemble_standalone.cpp:919:28: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
    for(unsigned int k=0;k< n;++k){
                            ^
mrnet_ensemble_standalone.cpp:848:48: 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; 
                                                ^
mrnet_ensemble_standalone.cpp:848:66: 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; 
                                                                  ^
mrnet_ensemble_standalone.cpp:849:21: 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;
                     ^
mrnet_ensemble_standalone.cpp:849:63: warning: variable ‘vec_local_max_sd’ set but not used [-Wunused-but-set-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;
                                                               ^
mrnet_ensemble_standalone.cpp: In function ‘SEXPREC* mrmr_ensemble_remove(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’:
mrnet_ensemble_standalone.cpp:1029:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(unsigned int i=0;i< *npredn;++i){
                           ^
mrnet_ensemble_standalone.cpp:1066:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
    for(unsigned int k=0;k<length_res_old;k++){
                           ^
mrnet_ensemble_standalone.cpp:1080:26: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(unsigned int k=0;k<length_res;k++){
                          ^
mrnet_ensemble_standalone.cpp:1085:19: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   if(i==(*npredn-1)){
                   ^
mrnet_ensemble_standalone.cpp:1089:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
    for(unsigned int k=0;k<length_res;k++){
                           ^
mrnet_ensemble_standalone.cpp:1046:13: warning: unused variable ‘cnt2’ [-Wunused-variable]
   int cnt=1,cnt2=0;
             ^
mrnet_ensemble_standalone.cpp:1049:7: warning: unused variable ‘rootdepth’ [-Wunused-variable]
   int rootdepth=res_tree.depth(it_final);
       ^
mrnet_ensemble_standalone.cpp:1063:7: warning: unused variable ‘ind’ [-Wunused-variable]
   int ind=0;
       ^
mrnet_ensemble_standalone.cpp:992:30: warning: unused variable ‘res_all’ [-Wunused-variable]
  int *predn, *rep_boot,*res,*res_all,*res_all2, *namat;
                              ^
mrnet_ensemble_standalone.cpp:992:39: warning: unused variable ‘res_all2’ [-Wunused-variable]
  int *predn, *rep_boot,*res,*res_all,*res_all2, *namat;
                                       ^
mrnet_ensemble_standalone.cpp:993:6: warning: unused variable ‘vec_tmp’ [-Wunused-variable]
  int vec_tmp;
      ^
mrnet_ensemble_standalone.cpp: In function ‘SEXPREC* mrmr_ensemble(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’:
mrnet_ensemble_standalone.cpp:840:9: warning: ‘Rres’ may be used uninitialized in this function [-Wmaybe-uninitialized]
  return Rres;
         ^
mrnet_ensemble_standalone.cpp:800:25: warning: ‘res_old’ may be used uninitialized in this function [-Wmaybe-uninitialized]
     res_all[k]=res_old[k];
                         ^
mrnet_ensemble_standalone.cpp: In function ‘SEXPREC* mrmr_ensemble_remove(SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP, SEXP)’:
mrnet_ensemble_standalone.cpp:1105:9: warning: ‘Rres’ may be used uninitialized in this function [-Wmaybe-uninitialized]
  return Rres;
         ^
mrnet_ensemble_standalone.cpp:1067:25: warning: ‘res_old’ may be used uninitialized in this function [-Wmaybe-uninitialized]
     res_all[k]=res_old[k];
                         ^
g++ -shared -L/home/biocbuild/bbs-3.1-bioc/R/lib -L/usr/local/lib -o predictionet.so foo_mrmr.o mrnet_adapted.o mrnet_adapted2.o mrnet_ensemble_standalone.o -L/home/biocbuild/bbs-3.1-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.1-bioc/meat/predictionet.Rcheck/predictionet/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded
* DONE (predictionet)

predictionet.Rcheck/predictionet-Ex.timings:

nameusersystemelapsed
adj.get.hops0.0160.0000.023
adj.remove.cycles0.0020.0000.002
data.discretize0.1580.0000.158
expO.colon.ras0.0010.0000.001
jorissen.colon.ras0.0010.0000.001
net2pred0.1080.0000.107
netinf0.0890.0000.090
netinf.cv0.2850.0040.286
netinf.predict0.0500.0040.056
netinf2gml0.220.000.22
pred.score0.0050.0000.005
predictionet.press.statistic0.2880.0000.288
predictionet.stability.cv0.2690.0000.269