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This page was generated on 2025-09-01 11:41 -0400 (Mon, 01 Sep 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4824
merida1macOS 12.7.5 Montereyx86_644.5.1 RC (2025-06-05 r88288) -- "Great Square Root" 4606
kjohnson1macOS 13.6.6 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4547
kunpeng2Linux (openEuler 24.03 LTS)aarch64R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" 4579
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

Package 953/2341HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
Harshlight 1.80.0  (landing page)
Maurizio Pellegrino
Snapshot Date: 2025-08-28 13:40 -0400 (Thu, 28 Aug 2025)
git_url: https://git.bioconductor.org/packages/Harshlight
git_branch: RELEASE_3_21
git_last_commit: 9a7ef74
git_last_commit_date: 2025-04-15 09:38:43 -0400 (Tue, 15 Apr 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  ERROR    ERROR  skipped
merida1macOS 12.7.5 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.6 Ventura / arm64  ERROR    ERROR  skippedskipped
kunpeng2Linux (openEuler 24.03 LTS) / aarch64  ERROR    ERROR  skipped

BUILD results for Harshlight on kjohnson1

To the developers/maintainers of the Harshlight package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/Harshlight.git to reflect on this report. See Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: Harshlight
Version: 1.80.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data Harshlight
StartedAt: 2025-08-29 01:48:04 -0400 (Fri, 29 Aug 2025)
EndedAt: 2025-08-29 01:48:05 -0400 (Fri, 29 Aug 2025)
EllapsedTime: 1.2 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data Harshlight
###
##############################################################################
##############################################################################


* checking for file ‘Harshlight/DESCRIPTION’ ... OK
* preparing ‘Harshlight’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
      -----------------------------------
* installing *source* package ‘Harshlight’ ...
** this is package ‘Harshlight’ version ‘1.80.0’
** using staged installation
** libs
using C compiler: ‘Apple clang version 15.0.0 (clang-1500.0.40.1)’
using SDK: ‘MacOSX11.3.sdk’
clang -arch arm64 -std=gnu2x -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG   -I/opt/R/arm64/include    -fPIC  -falign-functions=64 -Wall -g -O2  -c Harshlight.c -o Harshlight.o
Harshlight.c:564:20: warning: variable 'p_num_points' set but not used [-Wunused-but-set-variable]
  int num_points, *p_num_points; //number of points inside the median kernel
                   ^
Harshlight.c:789:7: warning: variable 'counter' set but not used [-Wunused-but-set-variable]
  int counter = 0; //counter
      ^
Harshlight.c:948:10: warning: variable 'cell_value' set but not used [-Wunused-but-set-variable]
  double cell_value;
         ^
Harshlight.c:1316:27: warning: unused variable 'sorted2' [-Wunused-variable]
  double *sorted; double *sorted2;
                          ^
Harshlight.c:1471:26: warning: invalid conversion specifier ')' [-Wformat-invalid-specifier]
  PP "%d %d moveto (%.2f%) show\n", x_text_val, y_text - 215, *diff_br);
                        ~^
Harshlight.c:1474:26: warning: invalid conversion specifier ')' [-Wformat-invalid-specifier]
  PP "%d %d moveto (%.2f%) show\n", x_text_val, y_text - 230, *diff_dr);
                        ~^
Harshlight.c:1504:6: error: conflicting types for 'chip_overall_header'
void chip_overall_header(int *chip_number, char **chip_name){
     ^
Harshlight.c:93:6: note: previous declaration is here
void chip_overall_header(); //general header for a chip
     ^
Harshlight.c:1532:107: warning: invalid conversion specifier ')' [-Wformat-invalid-specifier]
  PP "%d %d moveto (Extended defects: the variance of the Error Image explained by the background is %.2f%) show\n", x_text, y_text - 30, *var);
                                                                                                         ~^
Harshlight.c:1542:26: warning: invalid conversion specifier ')' [-Wformat-invalid-specifier]
  PP "%d %d moveto (%.2f%) show\n", x_val_1, y_text - 100, *perc_c);
                        ~^
Harshlight.c:1543:26: warning: invalid conversion specifier ')' [-Wformat-invalid-specifier]
  PP "%d %d moveto (%.2f%) show\n", x_val_2, y_text - 100, *perc_d);
                        ~^
Harshlight.c:1555:107: warning: invalid conversion specifier ')' [-Wformat-invalid-specifier]
  PP "%d %d moveto (Extended defects: the variance of the Error Image explained by the background is %.2f%) show\n", x_text, y_text - 30, *var);
                                                                                                         ~^
10 warnings and 1 error generated.
make: *** [Harshlight.o] Error 1
ERROR: compilation failed for package ‘Harshlight’
* removing ‘/private/tmp/RtmpgftIFZ/Rinst1362c55f8fabf/Harshlight’
      -----------------------------------
ERROR: package installation failed