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INSTALL report for DeMixT on malbec2

This page was generated on 2019-04-09 11:53:02 -0400 (Tue, 09 Apr 2019).

Package 408/1703HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
DeMixT 0.99.9
Zeya Wang , Fan Gao
Snapshot Date: 2019-04-08 17:01:18 -0400 (Mon, 08 Apr 2019)
URL: https://git.bioconductor.org/packages/DeMixT
Branch: master
Last Commit: cf860b0
Last Changed Date: 2019-04-02 15:33:18 -0400 (Tue, 02 Apr 2019)
malbec2 Linux (Ubuntu 18.04.2 LTS) / x86_64 [ OK ] OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
celaya2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK 

Summary

Package: DeMixT
Version: 0.99.9
Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL DeMixT
StartedAt: 2019-04-08 18:22:51 -0400 (Mon, 08 Apr 2019)
EndedAt: 2019-04-08 18:23:25 -0400 (Mon, 08 Apr 2019)
EllapsedTime: 34.0 seconds
RetCode: 0
Status:  OK 

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL DeMixT
###
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* installing to library ‘/home/biocbuild/bbs-3.9-bioc/R/library’
* installing *source* package ‘DeMixT’ ...
** using staged installation
** libs
gcc -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG   -I/usr/local/include -fopenmp -fpic  -g -O2  -Wall -c DeMixT.c -o DeMixT.o
DeMixT.c: In function ‘Tdemix’:
DeMixT.c:253:26: warning: implicit declaration of function ‘Rprintf’; did you mean ‘dprintf’? [-Wimplicit-function-declaration]
       if (nHavepi != 1)  Rprintf("Iteration %d: updating purities\n", i+1);
                          ^˜˜˜˜˜˜
                          dprintf
DeMixT.c:43:9: warning: unused variable ‘nthread’ [-Wunused-variable]
     int nthread=*thread;
         ^˜˜˜˜˜˜
DeMixT.c:36:45: warning: variable ‘st2_sig_2’ set but not used [-Wunused-but-set-variable]
   double *st1_mu_2, *st2_mu_2, *st1_sig_2, *st2_sig_2;
                                             ^˜˜˜˜˜˜˜˜
DeMixT.c:36:33: warning: variable ‘st1_sig_2’ set but not used [-Wunused-but-set-variable]
   double *st1_mu_2, *st2_mu_2, *st1_sig_2, *st2_sig_2;
                                 ^˜˜˜˜˜˜˜˜
DeMixT.c:36:22: warning: variable ‘st2_mu_2’ set but not used [-Wunused-but-set-variable]
   double *st1_mu_2, *st2_mu_2, *st1_sig_2, *st2_sig_2;
                      ^˜˜˜˜˜˜˜
DeMixT.c:36:11: warning: variable ‘st1_mu_2’ set but not used [-Wunused-but-set-variable]
   double *st1_mu_2, *st2_mu_2, *st1_sig_2, *st2_sig_2;
           ^˜˜˜˜˜˜˜
DeMixT.c: In function ‘gettumor’:
DeMixT.c:540:21: warning: variable ‘obj_new’ set but not used [-Wunused-but-set-variable]
     double obj_old, obj_new;
                     ^˜˜˜˜˜˜
DeMixT.c:540:12: warning: variable ‘obj_old’ set but not used [-Wunused-but-set-variable]
     double obj_old, obj_new;
            ^˜˜˜˜˜˜
DeMixT.c: In function ‘getpi’:
DeMixT.c:1229:21: warning: variable ‘obj_new’ set but not used [-Wunused-but-set-variable]
     double obj_old, obj_new;
                     ^˜˜˜˜˜˜
DeMixT.c:1229:12: warning: variable ‘obj_old’ set but not used [-Wunused-but-set-variable]
     double obj_old, obj_new;
            ^˜˜˜˜˜˜
DeMixT.c: In function ‘getpiT’:
DeMixT.c:1259:21: warning: variable ‘obj_new’ set but not used [-Wunused-but-set-variable]
     double obj_old, obj_new;
                     ^˜˜˜˜˜˜
DeMixT.c:1259:12: warning: variable ‘obj_old’ set but not used [-Wunused-but-set-variable]
     double obj_old, obj_new;
            ^˜˜˜˜˜˜
DeMixT.c: In function ‘Tdemix’:
DeMixT.c:188:11: warning: ‘Tavgtmp’ may be used uninitialized in this function [-Wmaybe-uninitialized]
         if(Tavgtmp <= 0) Tavgtmp = exp(10*log(2.0) + p->Tsigma[j]/2.0*pow(log(2.0), 2.0));
           ^
DeMixT.c:226:8: warning: argument 1 range [18446744071562067968, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=]
   CD = calloc(intx ,sizeof(double *));
        ^˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜˜
In file included from DeMixT.c:8:0:
/usr/include/stdlib.h:541:14: note: in a call to allocation function ‘calloc’ declared here
 extern void *calloc (size_t __nmemb, size_t __size)
              ^˜˜˜˜˜
gcc -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG   -I/usr/local/include -fopenmp -fpic  -g -O2  -Wall -c init.c -o init.o
gcc -I"/home/biocbuild/bbs-3.9-bioc/R/include" -DNDEBUG   -I/usr/local/include -fopenmp -fpic  -g -O2  -Wall -c registerDynamicSymbol.c -o registerDynamicSymbol.o
gcc -shared -L/home/biocbuild/bbs-3.9-bioc/R/lib -L/usr/local/lib -o DeMixT.so DeMixT.o init.o registerDynamicSymbol.o -fopenmp -L/home/biocbuild/bbs-3.9-bioc/R/lib -lR
installing to /home/biocbuild/bbs-3.9-bioc/R/library/00LOCK-DeMixT/00new/DeMixT/libs
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (DeMixT)