--- experimental! ---<BR>GPU-enabled build/check report for BioC 3.22<BR>Report updated every 6 hours

Hostname	OS	Arch (*)	R version	Installed pkgs
biocgpu	Linux (Ubuntu 24.04.2 LTS)	x86_64	4.5.1 (2025-06-13) -- "Great Square Root"	280
amarone	Linux (Ubuntu 24.04.2 LTS)	x86_64	4.5.1 (2025-06-13) -- "Great Square Root"	281
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*

BUILD results for RbowtieCuda on biocgpu

To the developers/maintainers of the RbowtieCuda package:
- 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: RbowtieCuda

Version: 1.1.7

Command: /home/biocbuild/bbs-3.22-bioc-gpu/R/bin/R CMD build --keep-empty-dirs --no-resave-data RbowtieCuda

StartedAt: 2025-08-17 09:47:36 -0400 (Sun, 17 Aug 2025)

EndedAt: 2025-08-17 09:47:40 -0400 (Sun, 17 Aug 2025)

EllapsedTime: 4.0 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.22-bioc-gpu/R/bin/R CMD build --keep-empty-dirs --no-resave-data RbowtieCuda
###
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* checking for file ‘RbowtieCuda/DESCRIPTION’ ... OK
* preparing ‘RbowtieCuda’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package to build vignettes
      -----------------------------------
* installing *source* package ‘RbowtieCuda’ ...
** this is package ‘RbowtieCuda’ version ‘1.1.7’
** using staged installation
** libs
cd "../src/nvbio/build" && rm -f CMakeCache.txt && cmake ..
CMake Warning at CMakeLists.txt:3 (message):
  CUDACXX=


CMake Warning at CMakeLists.txt:4 (message):
  
  PATH=/software/u24/nvhpc/24.7/Linux_x86_64/24.7/compilers/extras/qd/bin:/software/u24/nvhpc/24.7/Linux_x86_64/24.7/comm_libs/mpi/bin:/software/u24/nvhpc/24.7/Linux_x86_64/24.7/compilers/bin:/software/u24/nvhpc/24.7/Linux_x86_64/24.7/cuda/bin:/usr/local/bin:/usr/bin:/bin:/snap/bin:/home/biocbuild/.dotnet/tools:/opt/TurboVNC/bin


CMake Warning at CMakeLists.txt:14 (message):
  CUDACXX not set.  Searching for 'nvcc' or 'nvc++'...


CMake Warning at CMakeLists.txt:29 (message):
  Found CUDA compiler:
  /software/u24/nvhpc/24.7/Linux_x86_64/24.7/compilers/bin/nvcc


-- The CXX compiler identification is GNU 13.3.0
-- The CUDA compiler identification is NVIDIA 12.5.82
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working CXX compiler: /usr/bin/c++ - skipped
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Detecting CUDA compiler ABI info
-- Detecting CUDA compiler ABI info - done
-- Check for working CUDA compiler: /software/u24/nvhpc/24.7/Linux_x86_64/24.7/compilers/bin/nvcc - skipped
-- Detecting CUDA compile features
-- Detecting CUDA compile features - done
CMake Warning at CMakeLists.txt:46 (message):
  --- CUDA Environment Diagnostic ---

  libthrust-dev is installed

  libcub-dev is installed

  cmake is installed

  nvidia_smi missing; Please check your CUDA installation.





CMake Error at CMakeLists.txt:49 (message):
  CUDA environment check failed (code: 1).


-- Configuring incomplete, errors occurred!
make: *** [Makefile:10: all] Error 1
ERROR: compilation failed for package ‘RbowtieCuda’
* removing ‘/tmp/RtmpfC9bSb/Rinstf6bc58c342e3/RbowtieCuda’
      -----------------------------------
ERROR: package installation failed