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This page was generated on 2023-05-10 10:04:32 -0000 (Wed, 10 May 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) | aarch64 | R Under development (unstable) (2023-03-12 r83975) -- "Unsuffered Consequences" | 6211 |
| 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 | ||||
|
To the developers/maintainers of the gpuMagic package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/gpuMagic.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. Note: If "R CMD check" recently failed on the Linux builder over a missing dependency, add the missing dependency to "Suggests" in your DESCRIPTION file. See the Renviron.bioc for details. |
| Package 857/2194 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| gpuMagic 1.17.0 (landing page) Jiefei Wang
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) / aarch64 | OK | OK | OK | |||||||||
| Package: gpuMagic |
| Version: 1.17.0 |
| Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:gpuMagic.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings gpuMagic_1.17.0.tar.gz |
| StartedAt: 2023-05-09 17:49:32 -0000 (Tue, 09 May 2023) |
| EndedAt: 2023-05-09 17:51:26 -0000 (Tue, 09 May 2023) |
| EllapsedTime: 114.1 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: gpuMagic.Rcheck |
| Warnings: 0 |
##############################################################################
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###
### Running command:
###
### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:gpuMagic.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings gpuMagic_1.17.0.tar.gz
###
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##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/gpuMagic.Rcheck’
* using R Under development (unstable) (2023-03-12 r83975)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
gcc (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
GNU Fortran (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0
* running under: Ubuntu 22.04.2 LTS
* using session charset: UTF-8
* checking for file ‘gpuMagic/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘gpuMagic’ version ‘1.17.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘gpuMagic’ can be installed ... OK
* used C++ compiler: ‘g++ (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0’
* checking C++ specification ... NOTE
Specified C++11: please drop specification unless essential
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking startup messages can be suppressed ... NOTE
No device has been found, please make sure the computer has a graphic card or the driver has been properly installed.
Hint:
For CPU, you can install the intel's / ATI's graphic driver for the intel's / AMD's CPU respectively.
For GPU, you need to download the graphic driver from your vendor's website.
It looks like this package (or a package it requires) has a startup
message which cannot be suppressed: see ?packageStartupMessage.
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... OK
* checking for GNU extensions in Makefiles ... OK
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking include directives in Makefiles ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
Running ‘testthat.R’
OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ...
‘Customized-openCL-code.Rmd’ using ‘UTF-8’... OK
‘Quick_start_guide.Rmd’ using ‘UTF-8’... OK
NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: 3 NOTEs
See
‘/home/biocbuild/bbs-3.17-bioc/meat/gpuMagic.Rcheck/00check.log’
for details.
gpuMagic.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL gpuMagic ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library’ * installing *source* package ‘gpuMagic’ ... ** using staged installation ** libs using C++ compiler: ‘g++ (Ubuntu 11.3.0-1ubuntu1~22.04) 11.3.0’ using C++11 g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/include" -DNDEBUG -I/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/include -I../inst/include/OpenCL_header -DCL_TARGET_OPENCL_VERSION=220 -DCL_USE_DEPRECATED_OPENCL_1_2_APIS -DCL_SILENCE_DEPRECATION -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -c C_Interface.cpp -o C_Interface.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/include" -DNDEBUG -I/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/include -I../inst/include/OpenCL_header -DCL_TARGET_OPENCL_VERSION=220 -DCL_USE_DEPRECATED_OPENCL_1_2_APIS -DCL_SILENCE_DEPRECATION -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -c R_functionRegistration.cpp -o R_functionRegistration.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/include" -DNDEBUG -I/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/include -I../inst/include/OpenCL_header -DCL_TARGET_OPENCL_VERSION=220 -DCL_USE_DEPRECATED_OPENCL_1_2_APIS -DCL_SILENCE_DEPRECATION -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -c Tools.cpp -o Tools.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/include" -DNDEBUG -I/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/include -I../inst/include/OpenCL_header -DCL_TARGET_OPENCL_VERSION=220 -DCL_USE_DEPRECATED_OPENCL_1_2_APIS -DCL_SILENCE_DEPRECATION -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -c kernelManager.cpp -o kernelManager.o g++ -std=gnu++11 -I"/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/include" -DNDEBUG -I/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/include -I../inst/include/OpenCL_header -DCL_TARGET_OPENCL_VERSION=220 -DCL_USE_DEPRECATED_OPENCL_1_2_APIS -DCL_SILENCE_DEPRECATION -I'/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/lib/R/library/Rcpp/include' -I/usr/local/include -fPIC -g -O2 -c openArray.cpp -o openArray.o g++ -std=gnu++11 -shared -L/usr/local/lib -o gpuMagic.so C_Interface.o R_functionRegistration.o Tools.o kernelManager.o openArray.o -lOpenCL installing to /home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library/00LOCK-gpuMagic/00new/gpuMagic/libs ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location No device has been found, please make sure the computer has a graphic card or the driver has been properly installed. Hint: For CPU, you can install the intel's / ATI's graphic driver for the intel's / AMD's CPU respectively. For GPU, you need to download the graphic driver from your vendor's website. ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location No device has been found, please make sure the computer has a graphic card or the driver has been properly installed. Hint: For CPU, you can install the intel's / ATI's graphic driver for the intel's / AMD's CPU respectively. For GPU, you need to download the graphic driver from your vendor's website. ** testing if installed package keeps a record of temporary installation path * DONE (gpuMagic)
gpuMagic.Rcheck/tests/testthat.Rout
R Under development (unstable) (2023-03-12 r83975) -- "Unsuffered Consequences"
Copyright (C) 2023 The R Foundation for Statistical Computing
Platform: aarch64-unknown-linux-gnu (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> library(testthat)
> library(gpuMagic)
No device has been found, please make sure the computer has a graphic card or the driver has been properly installed.
Hint:
For CPU, you can install the intel's / ATI's graphic driver for the intel's / AMD's CPU respectively.
For GPU, you need to download the graphic driver from your vendor's website.
>
> test_check("gpuMagic")
[ FAIL 0 | WARN 0 | SKIP 7 | PASS 0 ]
══ Skipped tests ═══════════════════════════════════════════════════════════════
• gpuMagic:::getTotalDeviceNum() == 0 is TRUE (7)
[ FAIL 0 | WARN 0 | SKIP 7 | PASS 0 ]
>
> proc.time()
user system elapsed
2.946 0.313 3.240
gpuMagic.Rcheck/gpuMagic-Ex.timings
| name | user | system | elapsed | |
| DeviceInfo | 0.002 | 0.000 | 0.002 | |
| Matrix | 0.001 | 0.000 | 0.000 | |
| Scalar | 0 | 0 | 0 | |
| compileGPUCode | 0.525 | 0.004 | 0.529 | |
| dot-kernel | 0.004 | 0.000 | 0.004 | |
| gpuMagic.getAvailableType | 0.000 | 0.001 | 0.001 | |
| gpuMagic.getMemUsage | 0.000 | 0.001 | 0.001 | |
| gpuMagic.getOptions | 0.001 | 0.001 | 0.002 | |
| gpuMagic.setOptions | 0.001 | 0.000 | 0.001 | |
| gpuMatrix | 0.000 | 0.001 | 0.001 | |
| gpuSapply | 0.011 | 0.003 | 0.014 | |
| gpuSapply.getOption | 0.002 | 0.000 | 0.002 | |
| internalFunctions | 0.001 | 0.000 | 0.001 | |
| kernel.getOption | 0.003 | 0.000 | 0.003 | |
| ncol-gpuMatrix-method | 0.001 | 0.000 | 0.000 | |
| no_copy_method | 0 | 0 | 0 | |
| printFunctions | 0.000 | 0.002 | 0.002 | |
| subRef | 0 | 0 | 0 | |