| Back to Build/check report for BioC 3.18: simplified long |
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This page was generated on 2023-06-06 11:00:35 -0000 (Tue, 06 Jun 2023).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.3.0 (2023-04-21) -- "Already Tomorrow" | 4366 |
| 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 matter package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/matter.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 1119/2199 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| matter 2.3.0 (landing page) Kylie A. Bemis
| kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | |||||||||
| Package: matter |
| Version: 2.3.0 |
| Command: /home/biocbuild/R/R-4.3.0/bin/R CMD check --install=check:matter.install-out.txt --library=/home/biocbuild/R/R-4.3.0/site-library --timings matter_2.3.0.tar.gz |
| StartedAt: 2023-06-06 01:19:29 -0000 (Tue, 06 Jun 2023) |
| EndedAt: 2023-06-06 01:21:13 -0000 (Tue, 06 Jun 2023) |
| EllapsedTime: 104.2 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: matter.Rcheck |
| Warnings: 0 |
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### Running command:
###
### /home/biocbuild/R/R-4.3.0/bin/R CMD check --install=check:matter.install-out.txt --library=/home/biocbuild/R/R-4.3.0/site-library --timings matter_2.3.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.18-bioc/meat/matter.Rcheck’
* using R version 4.3.0 (2023-04-21)
* using platform: aarch64-unknown-linux-gnu (64-bit)
* R was compiled by
gcc (GCC) 10.3.1
GNU Fortran (GCC) 10.3.1
* running under: openEuler 22.03 (LTS-SP1)
* using session charset: UTF-8
* checking for file ‘matter/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘matter’ version ‘2.3.0’
* 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 ‘matter’ can be installed ... OK
* used C++ compiler: ‘g++ (GCC) 10.3.1’
* 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 loading without being on the library search path ... OK
* checking startup messages can be suppressed ... OK
* 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 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 ...
‘matter-2-guide.Rmd’ using ‘UTF-8’... OK
NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: 1 NOTE
See
‘/home/biocbuild/bbs-3.18-bioc/meat/matter.Rcheck/00check.log’
for details.
matter.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/R/R-4.3.0/bin/R CMD INSTALL matter ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/R/R-4.3.0/site-library’ * installing *source* package ‘matter’ ... ** using staged installation ** libs using C++ compiler: ‘g++ (GCC) 10.3.1’ g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -I/usr/local/include -fPIC -g -O2 -c altrep.cpp -o altrep.o g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -I/usr/local/include -fPIC -g -O2 -c init.cpp -o init.o g++ -std=gnu++17 -I"/home/biocbuild/R/R-4.3.0/include" -DNDEBUG -I/usr/local/include -fPIC -g -O2 -c matterExports.cpp -o matterExports.o g++ -std=gnu++17 -shared -L/home/biocbuild/R/R-4.3.0/lib -L/usr/local/lib -o matter.so altrep.o init.o matterExports.o -L/home/biocbuild/R/R-4.3.0/lib -lR installing to /home/biocbuild/R/R-4.3.0/site-library/00LOCK-matter/00new/matter/libs ** R ** byte-compile and prepare package for lazy loading Creating a new generic function for ‘apply’ in package ‘matter’ Creating a new generic function for ‘scale’ in package ‘matter’ ** 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 (matter)
matter.Rcheck/tests/testthat.Rout
R version 4.3.0 (2023-04-21) -- "Already Tomorrow"
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(matter)
Loading required package: BiocParallel
Loading required package: Matrix
Attaching package: 'matter'
The following objects are masked from 'package:base':
apply, scale
>
> test_check("matter")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 725 ]
>
> proc.time()
user system elapsed
13.069 0.474 13.560
matter.Rcheck/matter-Ex.timings
| name | user | system | elapsed | |
| asearch | 0.002 | 0.001 | 0.002 | |
| biglm | 0.080 | 0.003 | 0.084 | |
| binvec | 0.001 | 0.001 | 0.001 | |
| bsearch | 0.001 | 0.000 | 0.002 | |
| checksum | 0.038 | 0.000 | 0.038 | |
| chunkApply | 1.323 | 0.007 | 1.332 | |
| colscale | 0.104 | 0.004 | 0.109 | |
| colsweep | 0.018 | 0.000 | 0.018 | |
| deferred-ops | 0.058 | 0.004 | 0.061 | |
| drle-class | 0.002 | 0.000 | 0.002 | |
| findpeaks | 0.000 | 0.000 | 0.001 | |
| matter-class | 0.027 | 0.008 | 0.036 | |
| matter_arr-class | 0.047 | 0.000 | 0.047 | |
| matter_fct-class | 0.02 | 0.00 | 0.02 | |
| matter_list-class | 0.011 | 0.000 | 0.011 | |
| matter_str-class | 0.015 | 0.000 | 0.015 | |
| prcomp | 0.079 | 0.000 | 0.079 | |
| profmem | 0.540 | 0.000 | 0.541 | |
| rowStats | 0.144 | 0.000 | 0.144 | |
| sparse_arr-class | 0.008 | 0.000 | 0.009 | |
| stream-stats | 0.01 | 0.00 | 0.01 | |
| struct | 0.007 | 0.000 | 0.007 | |
| summary-stats | 0.170 | 0.000 | 0.171 | |
| uuid | 0.001 | 0.000 | 0.001 | |