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This page was generated on 2022-03-18 11:07:26 -0400 (Fri, 18 Mar 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 20.04.4 LTS)x86_64R Under development (unstable) (2022-02-17 r81757) -- "Unsuffered Consequences" 4334
riesling1Windows Server 2019 Standardx64R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences" 4097
palomino3Windows Server 2022 Datacenterx64R Under development (unstable) (2022-02-17 r81757 ucrt) -- "Unsuffered Consequences" 4083
merida1macOS 10.14.6 Mojavex86_64R Under development (unstable) (2022-03-02 r81842) -- "Unsuffered Consequences" 4134
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

INSTALL results for EBImage on riesling1


To the developers/maintainers of the EBImage package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/EBImage.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 564/2090HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
EBImage 4.37.0  (landing page)
Andrzej OleÅ›
Snapshot Date: 2022-03-17 13:55:23 -0400 (Thu, 17 Mar 2022)
git_url: https://git.bioconductor.org/packages/EBImage
git_branch: master
git_last_commit: a5133da
git_last_commit_date: 2021-10-26 11:49:28 -0400 (Tue, 26 Oct 2021)
nebbiolo1Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
riesling1Windows Server 2019 Standard / x64  OK    OK    OK    OK  
palomino3Windows Server 2022 Datacenter / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published

Summary

Package: EBImage
Version: 4.37.0
Command: D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL EBImage
StartedAt: 2022-03-17 15:28:30 -0400 (Thu, 17 Mar 2022)
EndedAt: 2022-03-17 15:30:02 -0400 (Thu, 17 Mar 2022)
EllapsedTime: 91.5 seconds
RetCode: 0
Status:   OK  

Command output

##############################################################################
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###
### Running command:
###
###   D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL EBImage
###
##############################################################################
##############################################################################


* installing to library 'D:/biocbuild/bbs-3.15-bioc/R/library'
* installing *source* package 'EBImage' ...
** using staged installation
** libs
"C:/rtools40/mingw64/bin/"gcc  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -c EBImage.c -o EBImage.o
"C:/rtools40/mingw64/bin/"gcc  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -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"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -c distmap.cpp -o distmap.o
"C:/rtools40/mingw64/bin/"gcc  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -c drawCircle.c -o drawCircle.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -c floodFill.cpp -o floodFill.o
"C:/rtools40/mingw64/bin/"gcc  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -c getFrames.c -o getFrames.o
"C:/rtools40/mingw64/bin/"gcc  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -c haralick.c -o haralick.o
"C:/rtools40/mingw64/bin/"gcc  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -c medianFilter.c -o medianFilter.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -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"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -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"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -c normalize.c -o normalize.o
"C:/rtools40/mingw64/bin/"gcc  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -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:
D:/biocbuild/bbs-3.15-bioc/R/include/Rdefines.h:143:28: 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"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -c ocontour.c -o ocontour.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -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"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -c spatial.c -o spatial.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -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"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -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"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -std=gnu99 -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -c tools.c -o tools.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -c transpose.cpp -o transpose.o
"C:/rtools40/mingw64/bin/"g++ -std=gnu++11  -I"D:/biocbuild/bbs-3.15-bioc/R/include" -DNDEBUG     -I"C:/extsoft/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign -fno-reorder-blocks-and-partition  -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 -LD:/biocbuild/bbs-3.15-bioc/R/bin/x64 -lR
installing to D:/biocbuild/bbs-3.15-bioc/R/library/00LOCK-EBImage/00new/EBImage/libs/x64
** 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  
REDIRECT:topic	 Previous alias or file overwritten by alias: D:/biocbuild/bbs-3.15-bioc/R/library/00LOCK-EBImage/00new/EBImage/help/colormode.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
* DONE (EBImage)
Making 'packages.html' ... done