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CHECK report for networkBMA on tokay1

This page was generated on 2020-04-15 12:20:50 -0400 (Wed, 15 Apr 2020).

Package 1152/1823HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
networkBMA 2.26.0
Ka Yee Yeung
Snapshot Date: 2020-04-14 16:46:13 -0400 (Tue, 14 Apr 2020)
URL: https://git.bioconductor.org/packages/networkBMA
Branch: RELEASE_3_10
Last Commit: e8f23a7
Last Changed Date: 2019-10-29 13:08:33 -0400 (Tue, 29 Oct 2019)
malbec1 Linux (Ubuntu 18.04.4 LTS) / x86_64  OK  OK  WARNINGS UNNEEDED, same version exists in internal repository
tokay1 Windows Server 2012 R2 Standard / x64  OK  OK [ ERROR ] OK 
merida1 OS X 10.11.6 El Capitan / x86_64  OK  OK  WARNINGS  OK UNNEEDED, same version exists in internal repository

Summary

Package: networkBMA
Version: 2.26.0
Command: C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:networkBMA.install-out.txt --library=C:\Users\biocbuild\bbs-3.10-bioc\R\library --no-vignettes --timings networkBMA_2.26.0.tar.gz
StartedAt: 2020-04-15 05:07:51 -0400 (Wed, 15 Apr 2020)
EndedAt: 2020-04-15 05:09:59 -0400 (Wed, 15 Apr 2020)
EllapsedTime: 127.2 seconds
RetCode: 1
Status:  ERROR  
CheckDir: networkBMA.Rcheck
Warnings: NA

Command output

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###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:networkBMA.install-out.txt --library=C:\Users\biocbuild\bbs-3.10-bioc\R\library --no-vignettes --timings networkBMA_2.26.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.10-bioc/meat/networkBMA.Rcheck'
* using R version 3.6.3 (2020-02-29)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'networkBMA/DESCRIPTION' ... OK
* this is package 'networkBMA' version '2.26.0'
* 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 ... OK
* checking for portable file names ... OK
* checking whether package 'networkBMA' can be installed ... WARNING
Found the following significant warnings:
  fastBMA.hpp:621:19: warning: 'CompactModelIndices<long long unsigned int>::nModels' will be initialized after [-Wreorder]
  fastBMA.hpp:619:17: warning:   'uint_fast32_t CompactModelIndices<long long unsigned int>::hashValue' [-Wreorder]
  fastBMA.hpp:662:3: warning:   when initialized here [-Wreorder]
See 'C:/Users/biocbuild/bbs-3.10-bioc/meat/networkBMA.Rcheck/00install.out' for details.
* 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
* loading checks for arch 'i386'
** 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
* loading checks for arch 'x64'
** 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 dependencies in R code ... OK
* checking S3 generic/method consistency ... NOTE
Found the following apparent S3 methods exported but not registered:
  summary.networkBMA
See section 'Registering S3 methods' in the 'Writing R Extensions'
manual.
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* 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 line endings in Makefiles ... OK
* checking compilation flags in Makevars ... NOTE
Package has both 'src/Makevars.in' and 'src/Makevars'.
Installation with --no-configure' is unlikely to work.  If you intended
'src/Makevars' to be used on Windows, rename it to 'src/Makevars.win'
otherwise remove it.  If 'configure' created 'src/Makevars', you need a
'cleanup' script.
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking compiled code ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... ERROR
Running examples in 'networkBMA-Ex.R' failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: networkBMA
> ### Title: Gene network inference from time series data via BMA.
> ### Aliases: networkBMA
> ### Keywords: models
> 
> ### ** Examples
> 
> data(dream4)
> 
> # there are a total of 5 datasets (networks) in the dream4ts10 data
> network <- 1
> 
> nTimePoints <- length(unique(dream4ts10[[network]]$time))
> 
> edges1ts10 <- networkBMA( data = dream4ts10[[network]][,-(1:2)], 
+                            nTimePoints = nTimePoints, prior.prob = 0.01)
> 
> summary(edges1ts10)
  0%  50%  75%  90%  95% 100% 
 100   14   13   12   12    5 
> 
> edges1ts10.fastBMA <- networkBMA(data=dream4ts10[[network]][,-(1:2)], nTimePoints = nTimePoints,
+                           control=fastBMAcontrol(optimize <- 4))
Error in fastBMA_g(data, nTimePoints, prior.prob, control$OR, control$nVars,  : 
  Rcpp length 0
Calls: networkBMA -> fastBMA -> fastBMA_g
Execution halted
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
         user system elapsed
gControl 5.08      0    5.08
* 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: 1 ERROR, 1 WARNING, 2 NOTEs
See
  'C:/Users/biocbuild/bbs-3.10-bioc/meat/networkBMA.Rcheck/00check.log'
for details.

Installation output

networkBMA.Rcheck/00install.out

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec1.bioconductor.org/BBS/3.10/bioc/src/contrib/networkBMA_2.26.0.tar.gz && rm -rf networkBMA.buildbin-libdir && mkdir networkBMA.buildbin-libdir && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=networkBMA.buildbin-libdir networkBMA_2.26.0.tar.gz && C:\Users\biocbuild\bbs-3.10-bioc\R\bin\R.exe CMD INSTALL networkBMA_2.26.0.zip && rm networkBMA_2.26.0.tar.gz networkBMA_2.26.0.zip
###
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  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100 1324k  100 1324k    0     0  14.0M      0 --:--:-- --:--:-- --:--:-- 14.6M

install for i386

* installing *source* package 'networkBMA' ...
** using staged installation
** libs
C:/Rtools/mingw_32/bin/g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -DWIN=1 -DUSE_RBLAS -I./include -I.  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppArmadillo/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/BH/include"   -I"C:/extsoft/include"  -fopenmp    -O2 -Wall  -mtune=core2 -c MurmurHash3.cpp -o MurmurHash3.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -DWIN=1 -DUSE_RBLAS -I./include -I.  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppArmadillo/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/BH/include"   -I"C:/extsoft/include"  -fopenmp    -O2 -Wall  -mtune=core2 -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_32/bin/g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -DWIN=1 -DUSE_RBLAS -I./include -I.  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppArmadillo/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/BH/include"   -I"C:/extsoft/include"  -fopenmp    -O2 -Wall  -mtune=core2 -c ScanBMA_full.cpp -o ScanBMA_full.o
ScanBMA_full.cpp: In function 'const List ScanBMA_BIC(Rcpp::NumericVector, Rcpp::NumericMatrix, Rcpp::NumericVector, double)':
ScanBMA_full.cpp:137:45: warning: 'const arma::mtOp<unsigned int, T1, arma::op_sort_index> arma::sort_index(const arma::Base<typename T1::elem_type, T1>&, arma::uword) [with T1 = arma::Mat<double>; typename T1::elem_type = double; arma::uword = unsigned int]' is deprecated (declared at C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppArmadillo/include/armadillo_bits/fn_sort_index.hpp:43) [-Wdeprecated-declarations]
   arma::uvec pord = sort_index(priorProbs, 1);
                                             ^
ScanBMA_full.cpp: In function 'const List BMA_Diff_BIC(Rcpp::NumericVector, Rcpp::NumericMatrix, Rcpp::NumericVector, Rcpp::IntegerVector, bool, bool, Rcpp::IntegerVector, Rcpp::IntegerVector, double, double)':
ScanBMA_full.cpp:328:43: warning: 'const arma::mtOp<unsigned int, T1, arma::op_sort_index> arma::sort_index(const arma::Base<typename T1::elem_type, T1>&, arma::uword) [with T1 = arma::Mat<double>; typename T1::elem_type = double; arma::uword = unsigned int]' is deprecated (declared at C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppArmadillo/include/armadillo_bits/fn_sort_index.hpp:43) [-Wdeprecated-declarations]
 arma::uvec pord = sort_index(priorProbs, 1);
                                           ^
ScanBMA_full.cpp: In function 'const List ScanBMA_g(Rcpp::NumericVector, Rcpp::NumericMatrix, Rcpp::NumericVector, double, double)':
ScanBMA_full.cpp:421:45: warning: 'const arma::mtOp<unsigned int, T1, arma::op_sort_index> arma::sort_index(const arma::Base<typename T1::elem_type, T1>&, arma::uword) [with T1 = arma::Mat<double>; typename T1::elem_type = double; arma::uword = unsigned int]' is deprecated (declared at C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppArmadillo/include/armadillo_bits/fn_sort_index.hpp:43) [-Wdeprecated-declarations]
   arma::uvec pord = sort_index(priorProbs, 1);
                                             ^
ScanBMA_full.cpp: In function 'const List BMA_Diff_g(Rcpp::NumericVector, Rcpp::NumericMatrix, Rcpp::NumericVector, double, Rcpp::IntegerVector, bool, bool, Rcpp::IntegerVector, Rcpp::IntegerVector, double, double)':
ScanBMA_full.cpp:614:43: warning: 'const arma::mtOp<unsigned int, T1, arma::op_sort_index> arma::sort_index(const arma::Base<typename T1::elem_type, T1>&, arma::uword) [with T1 = arma::Mat<double>; typename T1::elem_type = double; arma::uword = unsigned int]' is deprecated (declared at C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppArmadillo/include/armadillo_bits/fn_sort_index.hpp:43) [-Wdeprecated-declarations]
 arma::uvec pord = sort_index(priorProbs, 1);
                                           ^
C:/Rtools/mingw_32/bin/g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -DWIN=1 -DUSE_RBLAS -I./include -I.  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppArmadillo/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/BH/include"   -I"C:/extsoft/include"  -fopenmp    -O2 -Wall  -mtune=core2 -c fastBMAR.cpp -o fastBMAR.o
In file included from fastBMAR.cpp:3:0:
fastBMA.hpp:10:0: warning: "USE_RBLAS" redefined
 #define USE_RBLAS //for now always use the default RBLAS library
 ^
<command-line>:0:0: note: this is the location of the previous definition
In file included from fastBMAR.cpp:3:0:
fastBMA.hpp: In member function 'unsigned char BitArray::getBit(size_t)':
fastBMA.hpp:123:30: warning: suggest parentheses around '-' inside '>>' [-Wparentheses]
   return (array[index/8] >> 7-(index & 0x7)) & 0x1;
                              ^
fastBMA.hpp: In member function 'unsigned char BitArray::setBit(size_t)':
fastBMA.hpp:126:44: warning: suggest parentheses around '-' inside '<<' [-Wparentheses]
   array[index/8] = array[index/8] |  1 << 7-(index & 0x7);
                                            ^
fastBMA.hpp: In member function 'uint_fast32_t std::hash<CompactModelIndices<long long unsigned int> >::operator()(const CompactModelIndices<long long unsigned int>&) const':
fastBMA.hpp:721:18: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses]
      return(hash & 0xFFFFFFF0 | size);
                  ^
fastBMA.hpp:723:24: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses]
     return(k.hashValue & 0xFFFFFFF0 | size);      
                        ^
fastBMA.hpp: In member function 'uint_fast32_t std::hash<ModelIndicesHash<unsigned int> >::operator()(const ModelIndicesHash<unsigned int>&) const':
fastBMA.hpp:762:24: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses]
     return(k.hashValue & 0xFFFFFFF0 | size);      
                        ^
fastBMA.hpp: In member function 'float EdgeList::dijkstra_limit(int, int, float, float**, float)':
fastBMA.hpp:1107:6: warning: variable 'path_found' set but not used [-Wunused-but-set-variable]
  int path_found=0;
      ^
fastBMA.hpp: In member function 'float* EdgeList::cutter_prune_edges(float, float)':
fastBMA.hpp:1226:31: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
    if (((*((unsigned int*)&val) & 2147483648u))   or   (val >= upper_threshold)  )adjMatrix[i] = 2.0f;
                               ^
fastBMA.hpp: In function 'void mtrv(int, int, double*, int, double*, double*)':
fastBMA.hpp:1922:14: warning: unused variable 'izero' [-Wunused-variable]
   int ione=1,izero=0;
              ^
fastBMAR.cpp: In function 'const List fastBMA_g(Rcpp::NumericMatrix, int, Rcpp::NumericMatrix, double, int, double, Rcpp::CharacterVector, int, int, int, int, int, bool, bool, bool, double, double, double, double)':
fastBMAR.cpp:33:7: warning: unused variable 'colNum' [-Wunused-variable]
   int colNum = x.ncol();
       ^
In file included from fastBMAR.cpp:3:0:
fastBMA.hpp: In instantiation of 'uint64_t PackedBitArray<T>::get(uint8_t, size_t) [with T = long long unsigned int; uint64_t = long long unsigned int; uint8_t = unsigned char; size_t = unsigned int]':
fastBMA.hpp:719:50:   required from here
fastBMA.hpp:186:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=startIndex+1;i<endIndex;i++){
                           ^
fastBMA.hpp:187:39: warning: suggest parentheses around '-' inside '<<' [-Wparentheses]
    retValue |=  ((uint64_t) array[i]) << elementSize-bitsRead-tBits;
                                       ^
In file included from fastBMAR.cpp:4:0:
bmaNoMPI.hpp: In instantiation of 'void findEdges(BMARetStruct*, T**, T**, std::vector<std::basic_string<char> >&, int, int, int, bool, bool, bool, int, int, int, int, float, float, float, float, float, float, int, int) [with T = double]':
fastBMAR.cpp:150:2:   required from here
bmaNoMPI.hpp:121:2: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(int k=0;k<evalSubset.size();k++){
  ^
bmaNoMPI.hpp:145:16: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int j=0;j<thChildren[th].size();j++){
                ^
In file included from fastBMAR.cpp:3:0:
fastBMA.hpp: In instantiation of 'void initRegressParms(T*, T*, T**, int, int, int, int, int&, int, bool) [with T = double]':
bmaNoMPI.hpp:102:87:   required from 'void findEdges(BMARetStruct*, T**, T**, std::vector<std::basic_string<char> >&, int, int, int, bool, bool, bool, int, int, int, int, float, float, float, float, float, float, int, int) [with T = double]'
fastBMAR.cpp:150:2:   required from here
fastBMA.hpp:1701:7: warning: value computed is not used [-Wunused-value]
       *dest++;
       ^
fastBMA.hpp: In instantiation of 'int fastScanBMA_g(T*, T*, T, T, int, T*, bool, double*, int*, int, int, int, double, double, int, int) [with T = double]':
fastBMA.hpp:1757:151:   required from 'int findRegulators(T, int, int, float, float, int, int, bool, int, T**, T**, int*, double*, T*, T*, int, int, int, int, int, int) [with T = double]'
bmaNoMPI.hpp:127:217:   required from 'void findEdges(BMARetStruct*, T**, T**, std::vector<std::basic_string<char> >&, int, int, int, bool, bool, bool, int, int, int, int, float, float, float, float, float, float, int, int) [with T = double]'
fastBMAR.cpp:150:2:   required from here
fastBMA.hpp:1406:10: warning: unused variable 'g0' [-Wunused-variable]
   double g0=g; 
          ^
fastBMA.hpp:1401:6: warning: unused variable 'nIterations' [-Wunused-variable]
  int nIterations=0;
      ^
fastBMA.hpp:1402:7: warning: unused variable 'doneOptimizing' [-Wunused-variable]
  bool doneOptimizing=0;
       ^
fastBMA.hpp: In instantiation of 'T chooseBestModels(double, T*, int, int, int, int*, T*, T, T, double*, int*, int*, double*, double) [with T = double]':
fastBMA.hpp:1414:109:   required from 'int fastScanBMA_g(T*, T*, T, T, int, T*, bool, double*, int*, int, int, int, double, double, int, int) [with T = double]'
fastBMA.hpp:1757:151:   required from 'int findRegulators(T, int, int, float, float, int, int, bool, int, T**, T**, int*, double*, T*, T*, int, int, int, int, int, int) [with T = double]'
bmaNoMPI.hpp:127:217:   required from 'void findEdges(BMARetStruct*, T**, T**, std::vector<std::basic_string<char> >&, int, int, int, bool, bool, bool, int, int, int, int, float, float, float, float, float, float, int, int) [with T = double]'
fastBMAR.cpp:150:2:   required from here
fastBMA.hpp:1661:5: warning: unused variable 'rvalue' [-Wunused-variable]
   T rvalue=0;
     ^
fastBMA.hpp: In instantiation of 'CompactModelIndices<T>::CompactModelIndices() [with T = long long unsigned int]':
fastBMA.hpp:781:63:   required from 'ModelSet<T>::ModelSet(ModelIndices, T, T, double) [with T = double]'
fastBMA.hpp:1430:3:   required from 'T chooseBestModels(double, T*, int, int, int, int*, T*, T, T, double*, int*, int*, double*, double) [with T = double]'
fastBMA.hpp:1414:109:   required from 'int fastScanBMA_g(T*, T*, T, T, int, T*, bool, double*, int*, int, int, int, double, double, int, int) [with T = double]'
fastBMA.hpp:1757:151:   required from 'int findRegulators(T, int, int, float, float, int, int, bool, int, T**, T**, int*, double*, T*, T*, int, int, int, int, int, int) [with T = double]'
bmaNoMPI.hpp:127:217:   required from 'void findEdges(BMARetStruct*, T**, T**, std::vector<std::basic_string<char> >&, int, int, int, bool, bool, bool, int, int, int, int, float, float, float, float, float, float, int, int) [with T = double]'
fastBMAR.cpp:150:2:   required from here
fastBMA.hpp:625:12: warning: unused variable 'modelBits' [-Wunused-variable]
    uint8_t modelBits=gModelBits; 
            ^
fastBMA.hpp:626:12: warning: unused variable 'nModels' [-Wunused-variable]
    uint8_t nModels=0;
            ^
fastBMA.hpp: In instantiation of 'CompactModelIndices<T>::CompactModelIndices(ModelIndices&) [with T = long long unsigned int]':
fastBMA.hpp:782:16:   required from 'ModelSet<T>::ModelSet(ModelIndices, T, T, double) [with T = double]'
fastBMA.hpp:1430:3:   required from 'T chooseBestModels(double, T*, int, int, int, int*, T*, T, T, double*, int*, int*, double*, double) [with T = double]'
fastBMA.hpp:1414:109:   required from 'int fastScanBMA_g(T*, T*, T, T, int, T*, bool, double*, int*, int, int, int, double, double, int, int) [with T = double]'
fastBMA.hpp:1757:151:   required from 'int findRegulators(T, int, int, float, float, int, int, bool, int, T**, T**, int*, double*, T*, T*, int, int, int, int, int, int) [with T = double]'
bmaNoMPI.hpp:127:217:   required from 'void findEdges(BMARetStruct*, T**, T**, std::vector<std::basic_string<char> >&, int, int, int, bool, bool, bool, int, int, int, int, float, float, float, float, float, float, int, int) [with T = double]'
fastBMAR.cpp:150:2:   required from here
fastBMA.hpp:621:19: warning: 'CompactModelIndices<long long unsigned int>::nModels' will be initialized after [-Wreorder]
   uint8_t nModels=0; //never more than 256 variables in a model
                   ^
fastBMA.hpp:619:17: warning:   'uint_fast32_t CompactModelIndices<long long unsigned int>::hashValue' [-Wreorder]
   uint_fast32_t hashValue;
                 ^
fastBMA.hpp:662:3: warning:   when initialized here [-Wreorder]
   CompactModelIndices( ModelIndices &mind): nModels(mind.nModels),hashValue(mind.hashValue){
   ^
fastBMA.hpp: In instantiation of 'void PackedBitArray<T>::set(uint8_t, size_t, uint64_t) [with T = long long unsigned int; uint8_t = unsigned char; size_t = unsigned int; uint64_t = long long unsigned int]':
fastBMA.hpp:668:6:   required from 'CompactModelIndices<T>::CompactModelIndices(ModelIndices&) [with T = long long unsigned int]'
fastBMA.hpp:782:16:   required from 'ModelSet<T>::ModelSet(ModelIndices, T, T, double) [with T = double]'
fastBMA.hpp:1430:3:   required from 'T chooseBestModels(double, T*, int, int, int, int*, T*, T, T, double*, int*, int*, double*, double) [with T = double]'
fastBMA.hpp:1414:109:   required from 'int fastScanBMA_g(T*, T*, T, T, int, T*, bool, double*, int*, int, int, int, double, double, int, int) [with T = double]'
fastBMA.hpp:1757:151:   required from 'int findRegulators(T, int, int, float, float, int, int, bool, int, T**, T**, int*, double*, T*, T*, int, int, int, int, int, int) [with T = double]'
bmaNoMPI.hpp:127:217:   required from 'void findEdges(BMARetStruct*, T**, T**, std::vector<std::basic_string<char> >&, int, int, int, bool, bool, bool, int, int, int, int, float, float, float, float, float, float, int, int) [with T = double]'
fastBMAR.cpp:150:2:   required from here
fastBMA.hpp:212:48: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses]
    array[startIndex]=array[startIndex] & ~mask | ((T) value << (tBits- bitOffset -elementSize));
                                                ^
fastBMA.hpp:225:61: warning: suggest parentheses around '-' inside '>>' [-Wparentheses]
    array[startIndex]=(array[startIndex] & mask) | (T)(value >> elementSize  - (tBits-bitOffset));
                                                             ^
fastBMA.hpp:228:28: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
    for(int i=startIndex+1;i<endIndex;i++){
                            ^
fastBMA.hpp:229:25: warning: suggest parentheses around '-' inside '>>' [-Wparentheses]
     array[i]=(T) (value >> elementSize-bitsWritten-tBits);
                         ^
fastBMA.hpp:235:15: warning: suggest parentheses around '-' inside '>>' [-Wparentheses]
    mask= ones >> elementSize-bitsWritten;
               ^
fastBMA.hpp:236:43: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses]
    array[endIndex]=array[endIndex] & mask | (T) (value << (tBits-(elementSize-bitsWritten)));    
                                           ^
C:/Rtools/mingw_32/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o networkBMA.dll tmp.def MurmurHash3.o RcppExports.o ScanBMA_full.o fastBMAR.o -fopenmp -LC:/Users/BIOCBU~1/BBS-3~1.10-/R/bin/i386 -lRlapack -LC:/Users/BIOCBU~1/BBS-3~1.10-/R/bin/i386 -lRblas -lgfortran -lm -lquadmath -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.10-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.10-bioc/meat/networkBMA.buildbin-libdir/00LOCK-networkBMA/00new/networkBMA/libs/i386
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'networkBMA'
    finding HTML links ... done
    ScanBMA                                 html  
    ScanBMAcontrol                          html  
    contabs                                 html  
    contabs.netwBMA                         html  
    contabs.prelim                          html  
    dream4                                  html  
    fastBMAcontrol                          html  
    fastgControl                            html  
    gControl                                html  
    iBMAcontrolLM                           html  
    iterateBMAlm                            html  
    finding level-2 HTML links ... done

    networkBMA-internal                     html  
    networkBMA                              html  
    roc                                     html  
    scores                                  html  
    summary.networkBMA                      html  
    varord                                  html  
    vignette                                html  
    writeEdges                              html  
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path

install for x64

* installing *source* package 'networkBMA' ...
** libs
C:/Rtools/mingw_64/bin/g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -DWIN=1 -DUSE_RBLAS -I./include -I.  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppArmadillo/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/BH/include"   -I"C:/extsoft/include"  -fopenmp    -O2 -Wall  -mtune=core2 -c MurmurHash3.cpp -o MurmurHash3.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -DWIN=1 -DUSE_RBLAS -I./include -I.  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppArmadillo/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/BH/include"   -I"C:/extsoft/include"  -fopenmp    -O2 -Wall  -mtune=core2 -c RcppExports.cpp -o RcppExports.o
C:/Rtools/mingw_64/bin/g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -DWIN=1 -DUSE_RBLAS -I./include -I.  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppArmadillo/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/BH/include"   -I"C:/extsoft/include"  -fopenmp    -O2 -Wall  -mtune=core2 -c ScanBMA_full.cpp -o ScanBMA_full.o
ScanBMA_full.cpp: In function 'const List ScanBMA_BIC(Rcpp::NumericVector, Rcpp::NumericMatrix, Rcpp::NumericVector, double)':
ScanBMA_full.cpp:137:45: warning: 'const arma::mtOp<unsigned int, T1, arma::op_sort_index> arma::sort_index(const arma::Base<typename T1::elem_type, T1>&, arma::uword) [with T1 = arma::Mat<double>; typename T1::elem_type = double; arma::uword = unsigned int]' is deprecated (declared at C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppArmadillo/include/armadillo_bits/fn_sort_index.hpp:43) [-Wdeprecated-declarations]
   arma::uvec pord = sort_index(priorProbs, 1);
                                             ^
ScanBMA_full.cpp: In function 'const List BMA_Diff_BIC(Rcpp::NumericVector, Rcpp::NumericMatrix, Rcpp::NumericVector, Rcpp::IntegerVector, bool, bool, Rcpp::IntegerVector, Rcpp::IntegerVector, double, double)':
ScanBMA_full.cpp:328:43: warning: 'const arma::mtOp<unsigned int, T1, arma::op_sort_index> arma::sort_index(const arma::Base<typename T1::elem_type, T1>&, arma::uword) [with T1 = arma::Mat<double>; typename T1::elem_type = double; arma::uword = unsigned int]' is deprecated (declared at C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppArmadillo/include/armadillo_bits/fn_sort_index.hpp:43) [-Wdeprecated-declarations]
 arma::uvec pord = sort_index(priorProbs, 1);
                                           ^
ScanBMA_full.cpp: In function 'const List ScanBMA_g(Rcpp::NumericVector, Rcpp::NumericMatrix, Rcpp::NumericVector, double, double)':
ScanBMA_full.cpp:421:45: warning: 'const arma::mtOp<unsigned int, T1, arma::op_sort_index> arma::sort_index(const arma::Base<typename T1::elem_type, T1>&, arma::uword) [with T1 = arma::Mat<double>; typename T1::elem_type = double; arma::uword = unsigned int]' is deprecated (declared at C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppArmadillo/include/armadillo_bits/fn_sort_index.hpp:43) [-Wdeprecated-declarations]
   arma::uvec pord = sort_index(priorProbs, 1);
                                             ^
ScanBMA_full.cpp: In function 'const List BMA_Diff_g(Rcpp::NumericVector, Rcpp::NumericMatrix, Rcpp::NumericVector, double, Rcpp::IntegerVector, bool, bool, Rcpp::IntegerVector, Rcpp::IntegerVector, double, double)':
ScanBMA_full.cpp:614:43: warning: 'const arma::mtOp<unsigned int, T1, arma::op_sort_index> arma::sort_index(const arma::Base<typename T1::elem_type, T1>&, arma::uword) [with T1 = arma::Mat<double>; typename T1::elem_type = double; arma::uword = unsigned int]' is deprecated (declared at C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppArmadillo/include/armadillo_bits/fn_sort_index.hpp:43) [-Wdeprecated-declarations]
 arma::uvec pord = sort_index(priorProbs, 1);
                                           ^
C:/Rtools/mingw_64/bin/g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.10-/R/include" -DNDEBUG -DWIN=1 -DUSE_RBLAS -I./include -I.  -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/Rcpp/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppArmadillo/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/RcppEigen/include" -I"C:/Users/biocbuild/bbs-3.10-bioc/R/library/BH/include"   -I"C:/extsoft/include"  -fopenmp    -O2 -Wall  -mtune=core2 -c fastBMAR.cpp -o fastBMAR.o
In file included from fastBMAR.cpp:3:0:
fastBMA.hpp:10:0: warning: "USE_RBLAS" redefined
 #define USE_RBLAS //for now always use the default RBLAS library
 ^
<command-line>:0:0: note: this is the location of the previous definition
In file included from fastBMAR.cpp:3:0:
fastBMA.hpp: In member function 'unsigned char BitArray::getBit(size_t)':
fastBMA.hpp:123:30: warning: suggest parentheses around '-' inside '>>' [-Wparentheses]
   return (array[index/8] >> 7-(index & 0x7)) & 0x1;
                              ^
fastBMA.hpp: In member function 'unsigned char BitArray::setBit(size_t)':
fastBMA.hpp:126:44: warning: suggest parentheses around '-' inside '<<' [-Wparentheses]
   array[index/8] = array[index/8] |  1 << 7-(index & 0x7);
                                            ^
fastBMA.hpp: In member function 'uint_fast32_t std::hash<CompactModelIndices<long long unsigned int> >::operator()(const CompactModelIndices<long long unsigned int>&) const':
fastBMA.hpp:721:18: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses]
      return(hash & 0xFFFFFFF0 | size);
                  ^
fastBMA.hpp:723:24: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses]
     return(k.hashValue & 0xFFFFFFF0 | size);      
                        ^
fastBMA.hpp: In member function 'uint_fast32_t std::hash<ModelIndicesHash<unsigned int> >::operator()(const ModelIndicesHash<unsigned int>&) const':
fastBMA.hpp:762:24: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses]
     return(k.hashValue & 0xFFFFFFF0 | size);      
                        ^
fastBMA.hpp: In member function 'float EdgeList::dijkstra_limit(int, int, float, float**, float)':
fastBMA.hpp:1107:6: warning: variable 'path_found' set but not used [-Wunused-but-set-variable]
  int path_found=0;
      ^
fastBMA.hpp: In member function 'float* EdgeList::cutter_prune_edges(float, float)':
fastBMA.hpp:1226:31: warning: dereferencing type-punned pointer will break strict-aliasing rules [-Wstrict-aliasing]
    if (((*((unsigned int*)&val) & 2147483648u))   or   (val >= upper_threshold)  )adjMatrix[i] = 2.0f;
                               ^
fastBMA.hpp: In function 'void mtrv(int, int, double*, int, double*, double*)':
fastBMA.hpp:1922:14: warning: unused variable 'izero' [-Wunused-variable]
   int ione=1,izero=0;
              ^
fastBMAR.cpp: In function 'const List fastBMA_g(Rcpp::NumericMatrix, int, Rcpp::NumericMatrix, double, int, double, Rcpp::CharacterVector, int, int, int, int, int, bool, bool, bool, double, double, double, double)':
fastBMAR.cpp:33:7: warning: unused variable 'colNum' [-Wunused-variable]
   int colNum = x.ncol();
       ^
In file included from fastBMAR.cpp:3:0:
fastBMA.hpp: In instantiation of 'uint64_t PackedBitArray<T>::get(uint8_t, size_t) [with T = long long unsigned int; uint64_t = long long unsigned int; uint8_t = unsigned char; size_t = long long unsigned int]':
fastBMA.hpp:719:50:   required from here
fastBMA.hpp:186:27: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int i=startIndex+1;i<endIndex;i++){
                           ^
fastBMA.hpp:187:39: warning: suggest parentheses around '-' inside '<<' [-Wparentheses]
    retValue |=  ((uint64_t) array[i]) << elementSize-bitsRead-tBits;
                                       ^
In file included from fastBMAR.cpp:4:0:
bmaNoMPI.hpp: In instantiation of 'void findEdges(BMARetStruct*, T**, T**, std::vector<std::basic_string<char> >&, int, int, int, bool, bool, bool, int, int, int, int, float, float, float, float, float, float, int, int) [with T = double]':
fastBMAR.cpp:150:2:   required from here
bmaNoMPI.hpp:121:2: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
  for(int k=0;k<evalSubset.size();k++){
  ^
bmaNoMPI.hpp:145:16: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
   for(int j=0;j<thChildren[th].size();j++){
                ^
In file included from fastBMAR.cpp:3:0:
fastBMA.hpp: In instantiation of 'void initRegressParms(T*, T*, T**, int, int, int, int, int&, int, bool) [with T = double]':
bmaNoMPI.hpp:102:87:   required from 'void findEdges(BMARetStruct*, T**, T**, std::vector<std::basic_string<char> >&, int, int, int, bool, bool, bool, int, int, int, int, float, float, float, float, float, float, int, int) [with T = double]'
fastBMAR.cpp:150:2:   required from here
fastBMA.hpp:1701:7: warning: value computed is not used [-Wunused-value]
       *dest++;
       ^
fastBMA.hpp: In instantiation of 'int fastScanBMA_g(T*, T*, T, T, int, T*, bool, double*, int*, int, int, int, double, double, int, int) [with T = double]':
fastBMA.hpp:1757:151:   required from 'int findRegulators(T, int, int, float, float, int, int, bool, int, T**, T**, int*, double*, T*, T*, int, int, int, int, int, int) [with T = double]'
bmaNoMPI.hpp:127:217:   required from 'void findEdges(BMARetStruct*, T**, T**, std::vector<std::basic_string<char> >&, int, int, int, bool, bool, bool, int, int, int, int, float, float, float, float, float, float, int, int) [with T = double]'
fastBMAR.cpp:150:2:   required from here
fastBMA.hpp:1406:10: warning: unused variable 'g0' [-Wunused-variable]
   double g0=g; 
          ^
fastBMA.hpp:1401:6: warning: unused variable 'nIterations' [-Wunused-variable]
  int nIterations=0;
      ^
fastBMA.hpp:1402:7: warning: unused variable 'doneOptimizing' [-Wunused-variable]
  bool doneOptimizing=0;
       ^
fastBMA.hpp: In instantiation of 'T chooseBestModels(double, T*, int, int, int, int*, T*, T, T, double*, int*, int*, double*, double) [with T = double]':
fastBMA.hpp:1414:109:   required from 'int fastScanBMA_g(T*, T*, T, T, int, T*, bool, double*, int*, int, int, int, double, double, int, int) [with T = double]'
fastBMA.hpp:1757:151:   required from 'int findRegulators(T, int, int, float, float, int, int, bool, int, T**, T**, int*, double*, T*, T*, int, int, int, int, int, int) [with T = double]'
bmaNoMPI.hpp:127:217:   required from 'void findEdges(BMARetStruct*, T**, T**, std::vector<std::basic_string<char> >&, int, int, int, bool, bool, bool, int, int, int, int, float, float, float, float, float, float, int, int) [with T = double]'
fastBMAR.cpp:150:2:   required from here
fastBMA.hpp:1661:5: warning: unused variable 'rvalue' [-Wunused-variable]
   T rvalue=0;
     ^
fastBMA.hpp: In instantiation of 'CompactModelIndices<T>::CompactModelIndices() [with T = long long unsigned int]':
fastBMA.hpp:781:63:   required from 'ModelSet<T>::ModelSet(ModelIndices, T, T, double) [with T = double]'
fastBMA.hpp:1430:3:   required from 'T chooseBestModels(double, T*, int, int, int, int*, T*, T, T, double*, int*, int*, double*, double) [with T = double]'
fastBMA.hpp:1414:109:   required from 'int fastScanBMA_g(T*, T*, T, T, int, T*, bool, double*, int*, int, int, int, double, double, int, int) [with T = double]'
fastBMA.hpp:1757:151:   required from 'int findRegulators(T, int, int, float, float, int, int, bool, int, T**, T**, int*, double*, T*, T*, int, int, int, int, int, int) [with T = double]'
bmaNoMPI.hpp:127:217:   required from 'void findEdges(BMARetStruct*, T**, T**, std::vector<std::basic_string<char> >&, int, int, int, bool, bool, bool, int, int, int, int, float, float, float, float, float, float, int, int) [with T = double]'
fastBMAR.cpp:150:2:   required from here
fastBMA.hpp:625:12: warning: unused variable 'modelBits' [-Wunused-variable]
    uint8_t modelBits=gModelBits; 
            ^
fastBMA.hpp:626:12: warning: unused variable 'nModels' [-Wunused-variable]
    uint8_t nModels=0;
            ^
fastBMA.hpp: In instantiation of 'CompactModelIndices<T>::CompactModelIndices(ModelIndices&) [with T = long long unsigned int]':
fastBMA.hpp:782:16:   required from 'ModelSet<T>::ModelSet(ModelIndices, T, T, double) [with T = double]'
fastBMA.hpp:1430:3:   required from 'T chooseBestModels(double, T*, int, int, int, int*, T*, T, T, double*, int*, int*, double*, double) [with T = double]'
fastBMA.hpp:1414:109:   required from 'int fastScanBMA_g(T*, T*, T, T, int, T*, bool, double*, int*, int, int, int, double, double, int, int) [with T = double]'
fastBMA.hpp:1757:151:   required from 'int findRegulators(T, int, int, float, float, int, int, bool, int, T**, T**, int*, double*, T*, T*, int, int, int, int, int, int) [with T = double]'
bmaNoMPI.hpp:127:217:   required from 'void findEdges(BMARetStruct*, T**, T**, std::vector<std::basic_string<char> >&, int, int, int, bool, bool, bool, int, int, int, int, float, float, float, float, float, float, int, int) [with T = double]'
fastBMAR.cpp:150:2:   required from here
fastBMA.hpp:621:19: warning: 'CompactModelIndices<long long unsigned int>::nModels' will be initialized after [-Wreorder]
   uint8_t nModels=0; //never more than 256 variables in a model
                   ^
fastBMA.hpp:619:17: warning:   'uint_fast32_t CompactModelIndices<long long unsigned int>::hashValue' [-Wreorder]
   uint_fast32_t hashValue;
                 ^
fastBMA.hpp:662:3: warning:   when initialized here [-Wreorder]
   CompactModelIndices( ModelIndices &mind): nModels(mind.nModels),hashValue(mind.hashValue){
   ^
fastBMA.hpp: In instantiation of 'void PackedBitArray<T>::set(uint8_t, size_t, uint64_t) [with T = long long unsigned int; uint8_t = unsigned char; size_t = long long unsigned int; uint64_t = long long unsigned int]':
fastBMA.hpp:668:6:   required from 'CompactModelIndices<T>::CompactModelIndices(ModelIndices&) [with T = long long unsigned int]'
fastBMA.hpp:782:16:   required from 'ModelSet<T>::ModelSet(ModelIndices, T, T, double) [with T = double]'
fastBMA.hpp:1430:3:   required from 'T chooseBestModels(double, T*, int, int, int, int*, T*, T, T, double*, int*, int*, double*, double) [with T = double]'
fastBMA.hpp:1414:109:   required from 'int fastScanBMA_g(T*, T*, T, T, int, T*, bool, double*, int*, int, int, int, double, double, int, int) [with T = double]'
fastBMA.hpp:1757:151:   required from 'int findRegulators(T, int, int, float, float, int, int, bool, int, T**, T**, int*, double*, T*, T*, int, int, int, int, int, int) [with T = double]'
bmaNoMPI.hpp:127:217:   required from 'void findEdges(BMARetStruct*, T**, T**, std::vector<std::basic_string<char> >&, int, int, int, bool, bool, bool, int, int, int, int, float, float, float, float, float, float, int, int) [with T = double]'
fastBMAR.cpp:150:2:   required from here
fastBMA.hpp:212:48: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses]
    array[startIndex]=array[startIndex] & ~mask | ((T) value << (tBits- bitOffset -elementSize));
                                                ^
fastBMA.hpp:225:61: warning: suggest parentheses around '-' inside '>>' [-Wparentheses]
    array[startIndex]=(array[startIndex] & mask) | (T)(value >> elementSize  - (tBits-bitOffset));
                                                             ^
fastBMA.hpp:228:28: warning: comparison between signed and unsigned integer expressions [-Wsign-compare]
    for(int i=startIndex+1;i<endIndex;i++){
                            ^
fastBMA.hpp:229:25: warning: suggest parentheses around '-' inside '>>' [-Wparentheses]
     array[i]=(T) (value >> elementSize-bitsWritten-tBits);
                         ^
fastBMA.hpp:235:15: warning: suggest parentheses around '-' inside '>>' [-Wparentheses]
    mask= ones >> elementSize-bitsWritten;
               ^
fastBMA.hpp:236:43: warning: suggest parentheses around arithmetic in operand of '|' [-Wparentheses]
    array[endIndex]=array[endIndex] & mask | (T) (value << (tBits-(elementSize-bitsWritten)));    
                                           ^
C:/Rtools/mingw_64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o networkBMA.dll tmp.def MurmurHash3.o RcppExports.o ScanBMA_full.o fastBMAR.o -fopenmp -LC:/Users/BIOCBU~1/BBS-3~1.10-/R/bin/x64 -lRlapack -LC:/Users/BIOCBU~1/BBS-3~1.10-/R/bin/x64 -lRblas -lgfortran -lm -lquadmath -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.10-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.10-bioc/meat/networkBMA.buildbin-libdir/networkBMA/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'networkBMA' as networkBMA_2.26.0.zip
* DONE (networkBMA)
* installing to library 'C:/Users/biocbuild/bbs-3.10-bioc/R/library'
package 'networkBMA' successfully unpacked and MD5 sums checked

Tests output

Example timings

networkBMA.Rcheck/examples_i386/networkBMA-Ex.timings

nameusersystemelapsed
ScanBMA0.140.020.20
ScanBMAcontrol5.590.035.63
contabs1.230.011.25
contabs.netwBMA000
contabs.prelim000
fastBMAcontrol0.110.020.13
fastgControl0.130.000.12
gControl5.230.005.24
iBMAcontrolLM0.660.000.75
iterateBMAlm0.900.030.93

networkBMA.Rcheck/examples_x64/networkBMA-Ex.timings

nameusersystemelapsed
ScanBMA0.060.030.18
ScanBMAcontrol4.810.004.82
contabs1.870.001.88
contabs.netwBMA000
contabs.prelim000
fastBMAcontrol0.070.000.06
fastgControl0.060.020.08
gControl5.080.005.08
iBMAcontrolLM0.480.010.51
iterateBMAlm0.70.00.7
networkBMA0.270.020.29
roc0.720.000.71
scores0.830.000.83
summary.networkBMA0.610.010.63
varord0.140.020.15
vignette4.170.034.21
writeEdges0.580.000.57