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### Running command:
###
###   rm -rf PICS.buildbin-libdir && mkdir PICS.buildbin-libdir && D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL --build --library=PICS.buildbin-libdir PICS_2.39.0.tar.gz
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* installing *source* package 'PICS' ...
** using staged installation

   **********************************************
   WARNING: this package has a configure script
         It probably needs manual configuration
   **********************************************


** libs
"C:/rtools40/mingw64/bin/"gcc  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -Ifusion_sdk -D_USE_MEM_MAPPING_ -I/x64/include    -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -c pics.c -o pics.o
pics.c: In function 'ECM2':
pics.c:1009:9: warning: variable 'chiSum' set but not used [-Wunused-but-set-variable]
  double chiSum, etaF, etaR, dd, cc;
         ^~~~~~
pics.c: In function 'getInfMat':
pics.c:1633:76: warning: unused variable 'PhiRw' [-Wunused-variable]
    double aNormF, aNormR, bNormF, bNormR, P0F=1, P0R=1, PhiF, PhiR, PhiFw, PhiRw, wPjF, wPjR;
                                                                            ^~~~~
pics.c:1633:69: warning: unused variable 'PhiFw' [-Wunused-variable]
    double aNormF, aNormR, bNormF, bNormR, P0F=1, P0R=1, PhiF, PhiR, PhiFw, PhiRw, wPjF, wPjR;
                                                                     ^~~~~
pics.c: In function 'mergePeak':
pics.c:1889:11: warning: unused variable 'j' [-Wunused-variable]
   int i=0,j=0,k=0,l=0,kMerge=0,flag=0;
           ^
pics.c:1889:7: warning: unused variable 'i' [-Wunused-variable]
   int i=0,j=0,k=0,l=0,kMerge=0,flag=0;
       ^
pics.c: In function 'BIC':
pics.c:1307:6: warning: 'penalty' may be used uninitialized in this function [-Wmaybe-uninitialized]
  bic = logDensityMix(yF, w, muF, sigmaSqF, K, NF) + logDensityMix(yR, w, muR, sigmaSqR, K,NR) - penalty;
  ~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
pics.c: In function 'fitModelK':
pics.c:421:18: warning: 'firstFit' may be used uninitialized in this function [-Wmaybe-uninitialized]
  SEXP ans, temp, firstFit;
                  ^~~~~~~~
"C:/rtools40/mingw64/bin/"gcc  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG -Ifusion_sdk -D_USE_MEM_MAPPING_ -I/x64/include    -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -c segment.c -o segment.o
segment.c: In function 'getDensity':
segment.c:1494:19: warning: variable 'chr' set but not used [-Wunused-but-set-variable]
   SEXP ans, x, y, chr, names;
                   ^~~
segment.c:1490:8: warning: unused variable 'filter1' [-Wunused-variable]
   SEXP filter1;
        ^~~~~~~
segment.c:1489:11: warning: unused variable 'muFilter' [-Wunused-variable]
   double *muFilter, *deltaFilter, *sFFilter, *sRFilter, *seFilter, *seFilterF, *seFilterR, *scoreFilter, *score;
           ^~~~~~~~
C:/rtools40/mingw64/bin/gcc -shared -s -static-libgcc -o PICS.dll tmp.def pics.o segment.o -lws2_32 -L/x64/lib -lgsl -lgslcblas -lm -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LD:/biocbuild/bbs-3.15-bioc/R/bin/x64 -lR
installing to D:/biocbuild/bbs-3.15-bioc/meat/PICS.buildbin-libdir/00LOCK-PICS/00new/PICS/libs/x64
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'PICS'
    finding HTML links ... done
    PICS                                    html  
    bam2gr                                  html  
    candidate.region                        html  
    makeGRangesOutput                       html  
    pics-class                              html  
    pics-generics                           html  
    picsError-class                         html  
    picsFDR                                 html  
    picsList-class                          html  
    plot-FDR                                html  
    plot-pics                               html  
    segChrRead                              html  
    segReads-class                          html  
    segReadsGeneric                         html  
    segReadsListPE-class                    html  
    segReadsPE-class                        html  
    segmentPICS                             html  
    setParaEM                               html  
    setParaPrior                            html  
    summarySeg                              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
* MD5 sums
packaged installation of 'PICS' as PICS_2.39.0.zip
* DONE (PICS)