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INSTALL report for EBImage on tokay1

This page was generated on 2021-05-06 12:31:00 -0400 (Thu, 06 May 2021).

To the developers/maintainers of the EBImage package:
Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 525/1974HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
EBImage 4.32.0  (landing page)
Andrzej OleĊ›
Snapshot Date: 2021-05-05 14:51:38 -0400 (Wed, 05 May 2021)
URL: https://git.bioconductor.org/packages/EBImage
Branch: RELEASE_3_12
Last Commit: de9ff23
Last Changed Date: 2020-10-27 10:28:18 -0400 (Tue, 27 Oct 2020)
malbec1Linux (Ubuntu 18.04.5 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version exists in internal repository
tokay1Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version exists in internal repository
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version exists in internal repository

Summary

Package: EBImage
Version: 4.32.0
Command: C:\cygwin\bin\curl.exe -O http://172.29.0.3/BBS/3.12/bioc/src/contrib/EBImage_4.32.0.tar.gz && rm -rf EBImage.buildbin-libdir && mkdir EBImage.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=EBImage.buildbin-libdir EBImage_4.32.0.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL EBImage_4.32.0.zip && rm EBImage_4.32.0.tar.gz EBImage_4.32.0.zip
StartedAt: 2021-05-05 16:56:43 -0400 (Wed, 05 May 2021)
EndedAt: 2021-05-05 16:58:54 -0400 (Wed, 05 May 2021)
EllapsedTime: 131.3 seconds
RetCode: 0
Status:   OK   

Command output

##############################################################################
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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://172.29.0.3/BBS/3.12/bioc/src/contrib/EBImage_4.32.0.tar.gz && rm -rf EBImage.buildbin-libdir && mkdir EBImage.buildbin-libdir && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=EBImage.buildbin-libdir EBImage_4.32.0.tar.gz && C:\Users\biocbuild\bbs-3.12-bioc\R\bin\R.exe CMD INSTALL EBImage_4.32.0.zip && rm EBImage_4.32.0.tar.gz EBImage_4.32.0.zip
###
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##############################################################################


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  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100 1874k  100 1874k    0     0  47.2M      0 --:--:-- --:--:-- --:--:-- 48.1M

install for i386

* installing *source* package 'EBImage' ...
** using staged installation
** libs
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c EBImage.c -o EBImage.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c clahe.c -o clahe.o
clahe.c: In function 'CLAHE':
clahe.c:223:19: warning: suggest parentheses around '+' inside '>>' [-Wparentheses]
   uiSubY = uiYSize+1 >> 1; uiYU = uiNrY-1;  uiYB = uiYU;
            ~~~~~~~^~
clahe.c:235:23: warning: suggest parentheses around '+' inside '>>' [-Wparentheses]
       uiSubX = uiXSize+1 >> 1;  uiXL = uiNrX - 1; uiXR = uiXL;
                ~~~~~~~^~
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c distmap.cpp -o distmap.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c drawCircle.c -o drawCircle.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c floodFill.cpp -o floodFill.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c getFrames.c -o getFrames.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c haralick.c -o haralick.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c medianFilter.c -o medianFilter.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c morphology.cpp -o morphology.o
morphology.cpp: In instantiation of 'void compute_lookup_table_for_line_erode(type***, type*, int, int, chordSet*, PointXY) [with type = int]':
morphology.cpp:253:39:   required from 'void erode_dilate(type*, type*, PointXY, int, int, chordSet*, type***) [with type = int]'
morphology.cpp:340:27:   required from 'void _morphology(type*, type*, PointXY, int, SEXP, int) [with type = int; SEXP = SEXPREC*]'
morphology.cpp:374:79:   required from here
morphology.cpp:196:15: warning: statement has no effect [-Wunused-value]
         for (i; i < 0; ++i) {
               ^
morphology.cpp:199:15: warning: statement has no effect [-Wunused-value]
         for (i; i < maxX; ++i) {
               ^
morphology.cpp:203:15: warning: statement has no effect [-Wunused-value]
         for (i; i < size.x + set->maxXoffset; ++i) {
               ^
morphology.cpp: In instantiation of 'void compute_lookup_table_for_line_dilate(type***, type*, int, int, chordSet*, PointXY) [with type = int]':
morphology.cpp:257:39:   required from 'void erode_dilate(type*, type*, PointXY, int, int, chordSet*, type***) [with type = int]'
morphology.cpp:340:27:   required from 'void _morphology(type*, type*, PointXY, int, SEXP, int) [with type = int; SEXP = SEXPREC*]'
morphology.cpp:374:79:   required from here
morphology.cpp:163:15: warning: statement has no effect [-Wunused-value]
         for (i; i < 0; ++i) {
               ^
morphology.cpp:166:15: warning: statement has no effect [-Wunused-value]
         for (i; i < maxX; ++i) {
               ^
morphology.cpp:170:15: warning: statement has no effect [-Wunused-value]
         for (i; i < size.x + set->maxXoffset; ++i) {
               ^
morphology.cpp: In instantiation of 'void compute_lookup_table_for_line_erode(type***, type*, int, int, chordSet*, PointXY) [with type = double]':
morphology.cpp:253:39:   required from 'void erode_dilate(type*, type*, PointXY, int, int, chordSet*, type***) [with type = double]'
morphology.cpp:340:27:   required from 'void _morphology(type*, type*, PointXY, int, SEXP, int) [with type = double; SEXP = SEXPREC*]'
morphology.cpp:377:76:   required from here
morphology.cpp:196:15: warning: statement has no effect [-Wunused-value]
         for (i; i < 0; ++i) {
               ^
morphology.cpp:199:15: warning: statement has no effect [-Wunused-value]
         for (i; i < maxX; ++i) {
               ^
morphology.cpp:203:15: warning: statement has no effect [-Wunused-value]
         for (i; i < size.x + set->maxXoffset; ++i) {
               ^
morphology.cpp: In instantiation of 'void compute_lookup_table_for_line_dilate(type***, type*, int, int, chordSet*, PointXY) [with type = double]':
morphology.cpp:257:39:   required from 'void erode_dilate(type*, type*, PointXY, int, int, chordSet*, type***) [with type = double]'
morphology.cpp:340:27:   required from 'void _morphology(type*, type*, PointXY, int, SEXP, int) [with type = double; SEXP = SEXPREC*]'
morphology.cpp:377:76:   required from here
morphology.cpp:163:15: warning: statement has no effect [-Wunused-value]
         for (i; i < 0; ++i) {
               ^
morphology.cpp:166:15: warning: statement has no effect [-Wunused-value]
         for (i; i < maxX; ++i) {
               ^
morphology.cpp:170:15: warning: statement has no effect [-Wunused-value]
         for (i; i < size.x + set->maxXoffset; ++i) {
               ^
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c nativeRaster.c -o nativeRaster.o
nativeRaster.c: In function 'nativeRaster':
nativeRaster.c:38:7: warning: pointer targets in assignment from 'int *' to 'uint32_t *' {aka 'unsigned int *'} differ in signedness [-Wpointer-sign]
   out = INTEGER(res);
       ^
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c normalize.c -o normalize.o
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c objects.c -o objects.o
objects.c: In function 'paintObjects':
objects.c:21:30: warning: unused variable 'dp' [-Wunused-variable]
     double *obj, *src, *tgt, dp, val;
                              ^~
objects.c: In function 'stackObjects':
objects.c:295:10: warning: 'res' may be used uninitialized in this function [-Wmaybe-uninitialized]
   return res;
          ^~~
In file included from objects.h:5,
                 from objects.c:1:
C:/Users/BIOCBU~1/BBS-3~1.12-/R/include/Rdefines.h:152:28: warning: 'dim' may be used uninitialized in this function [-Wmaybe-uninitialized]
 #define SET_DIM(x, n)      Rf_setAttrib(x, R_DimSymbol, n)
                            ^~~~~~~~~~~~
objects.c:192:13: note: 'dim' was declared here
   SEXP res, dim, xys, img;
             ^~~
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c ocontour.c -o ocontour.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c propagate.cpp -o propagate.o
propagate.cpp: In function 'SEXPREC* propagate(SEXP, SEXP, SEXP, SEXP)':
propagate.cpp:174:31: warning: 'mask' may be used uninitialized in this function [-Wmaybe-uninitialized]
     if (! mask_in[IJ(p.i, p.j)]) continue;
                               ^
propagate.cpp:197:8: note: 'mask' was declared here
   int *mask;
        ^~~~
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c spatial.c -o spatial.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c thresh.cpp -o thresh.o
thresh.cpp: In instantiation of 'void _thresh(T*, int*, int, int, int, int, double) [with T = int]':
thresh.cpp:50:76:   required from here
thresh.cpp:64:42: warning: unused variable 'i' [-Wunused-variable]
     int xi, yi, u, k, l, ou, nu, ov, nv, i;
                                          ^
thresh.cpp: In instantiation of 'void _thresh(T*, int*, int, int, int, int, double) [with T = double]':
thresh.cpp:53:76:   required from here
thresh.cpp:64:42: warning: unused variable 'i' [-Wunused-variable]
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c tile.cpp -o tile.o
tile.cpp: In function 'SEXPREC* tile(SEXP, SEXP, SEXP)':
tile.cpp:24:17: warning: unused variable 'ims' [-Wunused-variable]
   SEXP res, dm, ims;
                 ^~~
tile.cpp: In function 'SEXPREC* untile(SEXP, SEXP, SEXP)':
tile.cpp:161:29: warning: unused variable 'y' [-Wunused-variable]
   int nprotect=0, i, j, im, y, iim;
                             ^
tile.cpp:162:18: warning: unused variable 'dat' [-Wunused-variable]
   SEXP res, dim, dat;
                  ^~~
tile.cpp:163:11: warning: unused variable 'src' [-Wunused-variable]
   double *src, *tgt;
           ^~~
tile.cpp:163:17: warning: unused variable 'tgt' [-Wunused-variable]
   double *src, *tgt;
                 ^~~
"C:/rtools40/mingw32/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c tools.c -o tools.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c transpose.cpp -o transpose.o
"C:/rtools40/mingw32/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c watershed.cpp -o watershed.o
C:/rtools40/mingw32/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o EBImage.dll tmp.def EBImage.o clahe.o distmap.o drawCircle.o floodFill.o getFrames.o haralick.o medianFilter.o morphology.o nativeRaster.o normalize.o objects.o ocontour.o propagate.o spatial.o thresh.o tile.o tools.o transpose.o watershed.o -LC:/extsoft/lib/i386 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.12-/R/bin/i386 -lR
installing to C:/Users/biocbuild/bbs-3.12-bioc/meat/EBImage.buildbin-libdir/00LOCK-EBImage/00new/EBImage/libs/i386
** R
** inst
** byte-compile and prepare package for lazy loading
Creating a new generic function for 'abind' in package 'EBImage'
** help
*** installing help indices
  converting help for package 'EBImage'
    finding HTML links ... done
    EBImage-defunct                         html  
    EBImage                                 html  
    Image                                   html  
    abind                                   html  
    bwlabel                                 html  
    channel                                 html  
    clahe                                   html  
    colorLabels                             html  
    colormap                                html  
    combine                                 html  
    computeFeatures                         html  
    display-shiny                           html  
    display                                 html  
    finding level-2 HTML links ... done

    distmap                                 html  
    drawCircle                              html  
    equalize                                html  
    fillHull                                html  
    filter2                                 html  
    floodFill                               html  
    gblur                                   html  
    io                                      html  
    localCurvature                          html  
    medianFilter                            html  
    morphology                              html  
    normalize                               html  
    ocontour                                html  
    otsu                                    html  
    paintObjects                            html  
    propagate                               html  
    rmObjects                               html  
    spatial                                 html  
    stackObjects                            html  
    thresh                                  html  
    tile                                    html  
    transpose                               html  
    watershed                               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 'EBImage' ...
** libs
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c EBImage.c -o EBImage.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c clahe.c -o clahe.o
clahe.c: In function 'CLAHE':
clahe.c:223:19: warning: suggest parentheses around '+' inside '>>' [-Wparentheses]
   uiSubY = uiYSize+1 >> 1; uiYU = uiNrY-1;  uiYB = uiYU;
            ~~~~~~~^~
clahe.c:235:23: warning: suggest parentheses around '+' inside '>>' [-Wparentheses]
       uiSubX = uiXSize+1 >> 1;  uiXL = uiNrX - 1; uiXR = uiXL;
                ~~~~~~~^~
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c distmap.cpp -o distmap.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c drawCircle.c -o drawCircle.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c floodFill.cpp -o floodFill.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c getFrames.c -o getFrames.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c haralick.c -o haralick.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c medianFilter.c -o medianFilter.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c morphology.cpp -o morphology.o
morphology.cpp: In instantiation of 'void compute_lookup_table_for_line_erode(type***, type*, int, int, chordSet*, PointXY) [with type = int]':
morphology.cpp:253:39:   required from 'void erode_dilate(type*, type*, PointXY, int, int, chordSet*, type***) [with type = int]'
morphology.cpp:340:27:   required from 'void _morphology(type*, type*, PointXY, int, SEXP, int) [with type = int; SEXP = SEXPREC*]'
morphology.cpp:374:79:   required from here
morphology.cpp:196:15: warning: statement has no effect [-Wunused-value]
         for (i; i < 0; ++i) {
               ^
morphology.cpp:199:15: warning: statement has no effect [-Wunused-value]
         for (i; i < maxX; ++i) {
               ^
morphology.cpp:203:15: warning: statement has no effect [-Wunused-value]
         for (i; i < size.x + set->maxXoffset; ++i) {
               ^
morphology.cpp: In instantiation of 'void compute_lookup_table_for_line_dilate(type***, type*, int, int, chordSet*, PointXY) [with type = int]':
morphology.cpp:257:39:   required from 'void erode_dilate(type*, type*, PointXY, int, int, chordSet*, type***) [with type = int]'
morphology.cpp:340:27:   required from 'void _morphology(type*, type*, PointXY, int, SEXP, int) [with type = int; SEXP = SEXPREC*]'
morphology.cpp:374:79:   required from here
morphology.cpp:163:15: warning: statement has no effect [-Wunused-value]
         for (i; i < 0; ++i) {
               ^
morphology.cpp:166:15: warning: statement has no effect [-Wunused-value]
         for (i; i < maxX; ++i) {
               ^
morphology.cpp:170:15: warning: statement has no effect [-Wunused-value]
         for (i; i < size.x + set->maxXoffset; ++i) {
               ^
morphology.cpp: In instantiation of 'void compute_lookup_table_for_line_erode(type***, type*, int, int, chordSet*, PointXY) [with type = double]':
morphology.cpp:253:39:   required from 'void erode_dilate(type*, type*, PointXY, int, int, chordSet*, type***) [with type = double]'
morphology.cpp:340:27:   required from 'void _morphology(type*, type*, PointXY, int, SEXP, int) [with type = double; SEXP = SEXPREC*]'
morphology.cpp:377:76:   required from here
morphology.cpp:196:15: warning: statement has no effect [-Wunused-value]
         for (i; i < 0; ++i) {
               ^
morphology.cpp:199:15: warning: statement has no effect [-Wunused-value]
         for (i; i < maxX; ++i) {
               ^
morphology.cpp:203:15: warning: statement has no effect [-Wunused-value]
         for (i; i < size.x + set->maxXoffset; ++i) {
               ^
morphology.cpp: In instantiation of 'void compute_lookup_table_for_line_dilate(type***, type*, int, int, chordSet*, PointXY) [with type = double]':
morphology.cpp:257:39:   required from 'void erode_dilate(type*, type*, PointXY, int, int, chordSet*, type***) [with type = double]'
morphology.cpp:340:27:   required from 'void _morphology(type*, type*, PointXY, int, SEXP, int) [with type = double; SEXP = SEXPREC*]'
morphology.cpp:377:76:   required from here
morphology.cpp:163:15: warning: statement has no effect [-Wunused-value]
         for (i; i < 0; ++i) {
               ^
morphology.cpp:166:15: warning: statement has no effect [-Wunused-value]
         for (i; i < maxX; ++i) {
               ^
morphology.cpp:170:15: warning: statement has no effect [-Wunused-value]
         for (i; i < size.x + set->maxXoffset; ++i) {
               ^
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c nativeRaster.c -o nativeRaster.o
nativeRaster.c: In function 'nativeRaster':
nativeRaster.c:38:7: warning: pointer targets in assignment from 'int *' to 'uint32_t *' {aka 'unsigned int *'} differ in signedness [-Wpointer-sign]
   out = INTEGER(res);
       ^
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c normalize.c -o normalize.o
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c objects.c -o objects.o
objects.c: In function 'paintObjects':
objects.c:21:30: warning: unused variable 'dp' [-Wunused-variable]
     double *obj, *src, *tgt, dp, val;
                              ^~
objects.c: In function 'stackObjects':
objects.c:295:10: warning: 'res' may be used uninitialized in this function [-Wmaybe-uninitialized]
   return res;
          ^~~
In file included from objects.h:5,
                 from objects.c:1:
C:/Users/BIOCBU~1/BBS-3~1.12-/R/include/Rdefines.h:152:28: warning: 'dim' may be used uninitialized in this function [-Wmaybe-uninitialized]
 #define SET_DIM(x, n)      Rf_setAttrib(x, R_DimSymbol, n)
                            ^~~~~~~~~~~~
objects.c:192:13: note: 'dim' was declared here
   SEXP res, dim, xys, img;
             ^~~
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c ocontour.c -o ocontour.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c propagate.cpp -o propagate.o
propagate.cpp: In function 'SEXPREC* propagate(SEXP, SEXP, SEXP, SEXP)':
propagate.cpp:174:31: warning: 'mask' may be used uninitialized in this function [-Wmaybe-uninitialized]
     if (! mask_in[IJ(p.i, p.j)]) continue;
                               ^
propagate.cpp:197:8: note: 'mask' was declared here
   int *mask;
        ^~~~
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c spatial.c -o spatial.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c thresh.cpp -o thresh.o
thresh.cpp: In instantiation of 'void _thresh(T*, int*, int, int, int, int, double) [with T = int]':
thresh.cpp:50:76:   required from here
thresh.cpp:64:42: warning: unused variable 'i' [-Wunused-variable]
     int xi, yi, u, k, l, ou, nu, ov, nv, i;
                                          ^
thresh.cpp: In instantiation of 'void _thresh(T*, int*, int, int, int, int, double) [with T = double]':
thresh.cpp:53:76:   required from here
thresh.cpp:64:42: warning: unused variable 'i' [-Wunused-variable]
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c tile.cpp -o tile.o
tile.cpp: In function 'SEXPREC* tile(SEXP, SEXP, SEXP)':
tile.cpp:24:17: warning: unused variable 'ims' [-Wunused-variable]
   SEXP res, dm, ims;
                 ^~~
tile.cpp: In function 'SEXPREC* untile(SEXP, SEXP, SEXP)':
tile.cpp:161:29: warning: unused variable 'y' [-Wunused-variable]
   int nprotect=0, i, j, im, y, iim;
                             ^
tile.cpp:162:18: warning: unused variable 'dat' [-Wunused-variable]
   SEXP res, dim, dat;
                  ^~~
tile.cpp:163:11: warning: unused variable 'src' [-Wunused-variable]
   double *src, *tgt;
           ^~~
tile.cpp:163:17: warning: unused variable 'tgt' [-Wunused-variable]
   double *src, *tgt;
                 ^~~
"C:/rtools40/mingw64/bin/"gcc  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -c tools.c -o tools.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c transpose.cpp -o transpose.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"C:/Users/BIOCBU~1/BBS-3~1.12-/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -c watershed.cpp -o watershed.o
C:/rtools40/mingw64/bin/g++ -std=gnu++11 -shared -s -static-libgcc -o EBImage.dll tmp.def EBImage.o clahe.o distmap.o drawCircle.o floodFill.o getFrames.o haralick.o medianFilter.o morphology.o nativeRaster.o normalize.o objects.o ocontour.o propagate.o spatial.o thresh.o tile.o tools.o transpose.o watershed.o -LC:/extsoft/lib/x64 -LC:/extsoft/lib -LC:/Users/BIOCBU~1/BBS-3~1.12-/R/bin/x64 -lR
installing to C:/Users/biocbuild/bbs-3.12-bioc/meat/EBImage.buildbin-libdir/EBImage/libs/x64
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'EBImage' as EBImage_4.32.0.zip
* DONE (EBImage)
* installing to library 'C:/Users/biocbuild/bbs-3.12-bioc/R/library'
package 'EBImage' successfully unpacked and MD5 sums checked