Package: DeMixT

Version: 1.0.4

Command: /home/biocbuild/bbs-3.9-bioc/R/bin/R CMD INSTALL DeMixT

StartedAt: 2019-10-15 18:49:37 -0400 (Tue, 15 Oct 2019)

EndedAt: 2019-10-15 18:50:04 -0400 (Tue, 15 Oct 2019)

EllapsedTime: 26.8 seconds

RetCode: 0

Status:  OK

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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:255:26: 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: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:542:21: warning: variable ‘obj_new’ set but not used [-Wunused-but-set-variable]
     double obj_old, obj_new;
                     ^~~~~~~
DeMixT.c:542:12: warning: variable ‘obj_old’ set but not used [-Wunused-but-set-variable]
     double obj_old, obj_new;
            ^~~~~~~
DeMixT.c: In function ‘getpi’:
DeMixT.c:1231:21: warning: variable ‘obj_new’ set but not used [-Wunused-but-set-variable]
     double obj_old, obj_new;
                     ^~~~~~~
DeMixT.c:1231:12: warning: variable ‘obj_old’ set but not used [-Wunused-but-set-variable]
     double obj_old, obj_new;
            ^~~~~~~
DeMixT.c: In function ‘getpiT’:
DeMixT.c:1261:21: warning: variable ‘obj_new’ set but not used [-Wunused-but-set-variable]
     double obj_old, obj_new;
                     ^~~~~~~
DeMixT.c:1261:12: warning: variable ‘obj_old’ set but not used [-Wunused-but-set-variable]
     double obj_old, obj_new;
            ^~~~~~~
DeMixT.c: In function ‘Tdemix’:
DeMixT.c:190:11: 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:89:8: warning: argument 1 range [18446744071562067968, 18446744073709551615] exceeds maximum object size 9223372036854775807 [-Walloc-size-larger-than=]
   FD = calloc(nS ,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)
              ^~~~~~
DeMixT.c:228:8: 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)