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INSTALL report for nem on celaya2

This page was generated on 2020-01-16 13:30:28 -0500 (Thu, 16 Jan 2020).

Package 1138/1818HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
nem 2.61.1
Holger Froehlich
Snapshot Date: 2020-01-15 16:46:30 -0500 (Wed, 15 Jan 2020)
URL: https://git.bioconductor.org/packages/nem
Branch: master
Last Commit: c0752d3
Last Changed Date: 2020-01-06 11:45:45 -0500 (Mon, 06 Jan 2020)
malbec2 Linux (Ubuntu 18.04.3 LTS) / x86_64  OK  OK  ERROR 
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  ERROR  OK 
celaya2 OS X 10.11.6 El Capitan / x86_64 [ OK ] OK  ERROR  OK 

Summary

Package: nem
Version: 2.61.1
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL nem
StartedAt: 2020-01-15 18:43:28 -0500 (Wed, 15 Jan 2020)
EndedAt: 2020-01-15 18:43:46 -0500 (Wed, 15 Jan 2020)
EllapsedTime: 18.0 seconds
RetCode: 0
Status:  OK 

Command output

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### Running command:
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###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL nem
###
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* installing to library ‘/Library/Frameworks/R.framework/Versions/4.0/Resources/library’
* installing *source* package ‘nem’ ...
** using staged installation
** libs
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include   -fPIC  -Wall -g -O2  -c MCMC.c -o MCMC.o
MCMC.c:44:45: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
                                p -= inv_nu*abs(net[s][k]-prior[s][k]);
                                            ^
MCMC.c:44:45: note: use function 'fabs' instead
                                p -= inv_nu*abs(net[s][k]-prior[s][k]);
                                            ^~~
                                            fabs
MCMC.c:72:62: warning: using integer absolute value function 'abs' when argument is of floating point type [-Wabsolute-value]
                                        if(Psi[p][s] != 0 && abs(Psi[p][s]) <= t){ // p is a parent
                                                             ^
MCMC.c:72:62: note: use function 'fabs' instead
                                        if(Psi[p][s] != 0 && abs(Psi[p][s]) <= t){ // p is a parent
                                                             ^~~
                                                             fabs
MCMC.c:402:10: warning: unused variable 'stored' [-Wunused-variable]
    long stored = 0;
         ^
MCMC.c:403:10: warning: unused variable 'stored2' [-Wunused-variable]
    long stored2 = 0;
         ^
MCMC.c:359:35: warning: unused variable 'mutinf' [-Wunused-variable]
    double loglikMean, loglikSum, mutinf, delta, logPrior_cur_scale;  
                                  ^
5 warnings generated.
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include   -fPIC  -Wall -g -O2  -c netlearn.c -o netlearn.o
netlearn.c:171:13: warning: variable 'negenes' used in loop condition not modified in loop body [-Wfor-loop-analysis]
                for (i=0; negenes; i++) {
                          ^~~~~~~
netlearn.c:168:9: warning: unused variable 'lik_switch' [-Wunused-variable]
        double lik_switch;
               ^
2 warnings generated.
clang -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include   -fPIC  -Wall -g -O2  -c wrapper.c -o wrapper.o
clang -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o nem.so MCMC.o netlearn.o wrapper.o -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Library/Frameworks/R.framework/Versions/4.0/Resources/library/00LOCK-nem/00new/nem/libs
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
   ‘nem.Rnw’ using ‘latin1’ 
** testing if installed package can be loaded from temporary location
Warning: Package 'nem' is deprecated and will be removed from Bioconductor
  version 3.12
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
Warning: Package 'nem' is deprecated and will be removed from Bioconductor
  version 3.12
** testing if installed package keeps a record of temporary installation path
* DONE (nem)