Back to Multiple platform build/check report for BioC 3.16:   simplified   long
ABCD[E]FGHIJKLMNOPQRSTUVWXYZ

This page was generated on 2023-04-12 11:06:06 -0400 (Wed, 12 Apr 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.5 LTS)x86_644.2.3 (2023-03-15) -- "Shortstop Beagle" 4502
palomino4Windows Server 2022 Datacenterx644.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle" 4282
lconwaymacOS 12.5.1 Montereyx86_644.2.3 (2023-03-15) -- "Shortstop Beagle" 4310
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 lconway


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? 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 588/2183HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
EBImage 4.40.1  (landing page)
Andrzej Oleś
Snapshot Date: 2023-04-10 14:00:05 -0400 (Mon, 10 Apr 2023)
git_url: https://git.bioconductor.org/packages/EBImage
git_branch: RELEASE_3_16
git_last_commit: f2b0b41
git_last_commit_date: 2023-04-09 16:52:13 -0400 (Sun, 09 Apr 2023)
nebbiolo2Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    OK    OK  YES
palomino4Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  YES
lconwaymacOS 12.5.1 Monterey / x86_64  OK    OK    OK    OK  YES

Summary

Package: EBImage
Version: 4.40.1
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL EBImage
StartedAt: 2023-04-10 15:09:54 -0400 (Mon, 10 Apr 2023)
EndedAt: 2023-04-10 15:10:11 -0400 (Mon, 10 Apr 2023)
EllapsedTime: 17.2 seconds
RetCode: 0
Status:   OK  

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL EBImage
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.2/Resources/library’
* installing *source* package ‘EBImage’ ...
** using staged installation
** libs
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c EBImage.c -o EBImage.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c clahe.c -o clahe.o
clahe.c:223:19: warning: operator '>>' has lower precedence than '+'; '+' will be evaluated first [-Wshift-op-parentheses]
                uiSubY = uiYSize+1 >> 1;        uiYU = uiNrY-1;  uiYB = uiYU;
                         ~~~~~~~^~ ~~
clahe.c:223:19: note: place parentheses around the '+' expression to silence this warning
                uiSubY = uiYSize+1 >> 1;        uiYU = uiNrY-1;  uiYB = uiYU;
                                ^
                         (        )
clahe.c:235:23: warning: operator '>>' has lower precedence than '+'; '+' will be evaluated first [-Wshift-op-parentheses]
                    uiSubX = uiXSize+1 >> 1;  uiXL = uiNrX - 1; uiXR = uiXL;
                             ~~~~~~~^~ ~~
clahe.c:235:23: note: place parentheses around the '+' expression to silence this warning
                    uiSubX = uiXSize+1 >> 1;  uiXL = uiNrX - 1; uiXR = uiXL;
                                    ^
                             (        )
2 warnings generated.
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c distmap.cpp -o distmap.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c drawCircle.c -o drawCircle.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c floodFill.cpp -o floodFill.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c getFrames.c -o getFrames.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c haralick.c -o haralick.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c medianFilter.c -o medianFilter.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c morphology.cpp -o morphology.o
morphology.cpp:163:14: warning: expression result unused [-Wunused-value]
        for (i; i < 0; ++i) {
             ^
morphology.cpp:166:14: warning: expression result unused [-Wunused-value]
        for (i; i < maxX; ++i) {
             ^
morphology.cpp:170:14: warning: expression result unused [-Wunused-value]
        for (i; i < size.x + set->maxXoffset; ++i) {
             ^
morphology.cpp:196:14: warning: expression result unused [-Wunused-value]
        for (i; i < 0; ++i) {
             ^
morphology.cpp:199:14: warning: expression result unused [-Wunused-value]
        for (i; i < maxX; ++i) {
             ^
morphology.cpp:203:14: warning: expression result unused [-Wunused-value]
        for (i; i < size.x + set->maxXoffset; ++i) {
             ^
morphology.cpp:196:14: warning: expression result unused [-Wunused-value]
        for (i; i < 0; ++i) {
             ^
morphology.cpp:253:42: note: in instantiation of function template specialization 'compute_lookup_table_for_line_erode<int>' requested here
        compute_lookup_table_for_line = &compute_lookup_table_for_line_erode<type>;
                                         ^
morphology.cpp:340:9: note: in instantiation of function template specialization 'erode_dilate<int>' requested here
        erode_dilate<type>(x, res, size, nz, what, &set, T);
        ^
morphology.cpp:374:9: note: in instantiation of function template specialization '_morphology<int>' requested here
        _morphology<int>(INTEGER(x), INTEGER(res), size, nz, kernel, operation);
        ^
morphology.cpp:199:14: warning: expression result unused [-Wunused-value]
        for (i; i < maxX; ++i) {
             ^
morphology.cpp:203:14: warning: expression result unused [-Wunused-value]
        for (i; i < size.x + set->maxXoffset; ++i) {
             ^
morphology.cpp:163:14: warning: expression result unused [-Wunused-value]
        for (i; i < 0; ++i) {
             ^
morphology.cpp:257:42: note: in instantiation of function template specialization 'compute_lookup_table_for_line_dilate<int>' requested here
        compute_lookup_table_for_line = &compute_lookup_table_for_line_dilate<type>;
                                         ^
morphology.cpp:340:9: note: in instantiation of function template specialization 'erode_dilate<int>' requested here
        erode_dilate<type>(x, res, size, nz, what, &set, T);
        ^
morphology.cpp:374:9: note: in instantiation of function template specialization '_morphology<int>' requested here
        _morphology<int>(INTEGER(x), INTEGER(res), size, nz, kernel, operation);
        ^
morphology.cpp:166:14: warning: expression result unused [-Wunused-value]
        for (i; i < maxX; ++i) {
             ^
morphology.cpp:170:14: warning: expression result unused [-Wunused-value]
        for (i; i < size.x + set->maxXoffset; ++i) {
             ^
morphology.cpp:196:14: warning: expression result unused [-Wunused-value]
        for (i; i < 0; ++i) {
             ^
morphology.cpp:253:42: note: in instantiation of function template specialization 'compute_lookup_table_for_line_erode<double>' requested here
        compute_lookup_table_for_line = &compute_lookup_table_for_line_erode<type>;
                                         ^
morphology.cpp:340:9: note: in instantiation of function template specialization 'erode_dilate<double>' requested here
        erode_dilate<type>(x, res, size, nz, what, &set, T);
        ^
morphology.cpp:377:9: note: in instantiation of function template specialization '_morphology<double>' requested here
        _morphology<double>(REAL(x), REAL(res), size, nz, kernel, operation);
        ^
morphology.cpp:199:14: warning: expression result unused [-Wunused-value]
        for (i; i < maxX; ++i) {
             ^
morphology.cpp:203:14: warning: expression result unused [-Wunused-value]
        for (i; i < size.x + set->maxXoffset; ++i) {
             ^
morphology.cpp:163:14: warning: expression result unused [-Wunused-value]
        for (i; i < 0; ++i) {
             ^
morphology.cpp:257:42: note: in instantiation of function template specialization 'compute_lookup_table_for_line_dilate<double>' requested here
        compute_lookup_table_for_line = &compute_lookup_table_for_line_dilate<type>;
                                         ^
morphology.cpp:340:9: note: in instantiation of function template specialization 'erode_dilate<double>' requested here
        erode_dilate<type>(x, res, size, nz, what, &set, T);
        ^
morphology.cpp:377:9: note: in instantiation of function template specialization '_morphology<double>' requested here
        _morphology<double>(REAL(x), REAL(res), size, nz, kernel, operation);
        ^
morphology.cpp:166:14: warning: expression result unused [-Wunused-value]
        for (i; i < maxX; ++i) {
             ^
morphology.cpp:170:14: warning: expression result unused [-Wunused-value]
        for (i; i < size.x + set->maxXoffset; ++i) {
             ^
18 warnings generated.
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c nativeRaster.c -o nativeRaster.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c normalize.c -o normalize.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c objects.c -o objects.o
objects.c:21:30: warning: unused variable 'dp' [-Wunused-variable]
    double *obj, *src, *tgt, dp, val;
                             ^
1 warning generated.
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c ocontour.c -o ocontour.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c propagate.cpp -o propagate.o
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c spatial.c -o spatial.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c thresh.cpp -o thresh.o
thresh.cpp:64:42: warning: unused variable 'i' [-Wunused-variable]
    int xi, yi, u, k, l, ou, nu, ov, nv, i;
                                         ^
1 warning generated.
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c tile.cpp -o tile.o
tile.cpp:24:17: warning: unused variable 'ims' [-Wunused-variable]
  SEXP res, dm, ims;
                ^
tile.cpp:167:20: warning: use of GNU old-style field designator extension [-Wgnu-designator]
  Dims d = (Dims) {dx: sdim[0], dy: sdim[1], nx: nx, ny: ny, xoff: 0, yoff: 0};
                   ^~~
                   .dx = 
tile.cpp:167:33: warning: use of GNU old-style field designator extension [-Wgnu-designator]
  Dims d = (Dims) {dx: sdim[0], dy: sdim[1], nx: nx, ny: ny, xoff: 0, yoff: 0};
                                ^~~
                                .dy = 
tile.cpp:167:46: warning: use of GNU old-style field designator extension [-Wgnu-designator]
  Dims d = (Dims) {dx: sdim[0], dy: sdim[1], nx: nx, ny: ny, xoff: 0, yoff: 0};
                                             ^~~
                                             .nx = 
tile.cpp:167:54: warning: use of GNU old-style field designator extension [-Wgnu-designator]
  Dims d = (Dims) {dx: sdim[0], dy: sdim[1], nx: nx, ny: ny, xoff: 0, yoff: 0};
                                                     ^~~
                                                     .ny = 
tile.cpp:167:62: warning: use of GNU old-style field designator extension [-Wgnu-designator]
  Dims d = (Dims) {dx: sdim[0], dy: sdim[1], nx: nx, ny: ny, xoff: 0, yoff: 0};
                                                             ^~~~~
                                                             .xoff = 
tile.cpp:167:71: warning: use of GNU old-style field designator extension [-Wgnu-designator]
  Dims d = (Dims) {dx: sdim[0], dy: sdim[1], nx: nx, ny: ny, xoff: 0, yoff: 0};
                                                                      ^~~~~
                                                                      .yoff = 
tile.cpp:161:29: warning: unused variable 'y' [-Wunused-variable]
  int nprotect=0, i, j, im, y, iim;
                            ^
tile.cpp:163:11: warning: unused variable 'src' [-Wunused-variable]
  double *src, *tgt;
          ^
tile.cpp:162:18: warning: unused variable 'dat' [-Wunused-variable]
  SEXP res, dim, dat;
                 ^
tile.cpp:163:17: warning: unused variable 'tgt' [-Wunused-variable]
  double *src, *tgt;
                ^
11 warnings generated.
clang -mmacosx-version-min=10.13 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c tools.c -o tools.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c transpose.cpp -o transpose.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/usr/local/include   -fPIC  -Wall -g -O2  -c watershed.cpp -o watershed.o
clang++ -mmacosx-version-min=10.13 -std=gnu++14 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o EBImage.so 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 -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Library/Frameworks/R.framework/Versions/4.2/Resources/library/00LOCK-EBImage/00new/EBImage/libs
** R
** inst
** byte-compile and prepare package for lazy loading
Creating a new generic function for ‘abind’ in package ‘EBImage’
** 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 (EBImage)