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This page was generated on 2024-04-18 11:32:15 -0400 (Thu, 18 Apr 2024).

HostnameOSArch (*)R versionInstalled pkgs
kjohnson1macOS 13.6.1 Venturaarm644.3.3 (2024-02-29) -- "Angel Food Cake" 4388
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 1458/2266HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
oneSENSE 1.24.0  (landing page)
Yong Kee Tan
Snapshot Date: 2024-04-16 09:00:03 -0400 (Tue, 16 Apr 2024)
git_url: https://git.bioconductor.org/packages/oneSENSE
git_branch: RELEASE_3_18
git_last_commit: 3f8955f
git_last_commit_date: 2023-10-24 10:58:24 -0400 (Tue, 24 Oct 2023)
kjohnson1macOS 13.6.1 Ventura / arm64  OK    OK    ERROR    OK  

CHECK results for oneSENSE on kjohnson1


To the developers/maintainers of the oneSENSE 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: oneSENSE
Version: 1.24.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:oneSENSE.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings oneSENSE_1.24.0.tar.gz
StartedAt: 2024-04-17 21:59:00 -0400 (Wed, 17 Apr 2024)
EndedAt: 2024-04-17 22:01:34 -0400 (Wed, 17 Apr 2024)
EllapsedTime: 153.8 seconds
RetCode: 1
Status:   ERROR  
CheckDir: oneSENSE.Rcheck
Warnings: NA

Command output

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###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:oneSENSE.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings oneSENSE_1.24.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.18-bioc-mac-arm64/meat/oneSENSE.Rcheck’
* using R version 4.3.3 (2024-02-29)
* using platform: aarch64-apple-darwin20 (64-bit)
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Ventura 13.6.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘oneSENSE/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘oneSENSE’ version ‘1.24.0’
* 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 ‘oneSENSE’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... NOTE
File
  LICENSE
is not mentioned in the DESCRIPTION file.
* 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 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 files in ‘vignettes’ ... OK
* checking examples ... ERROR
Running examples in ‘oneSENSE-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: OneSmapperFlour
> ### Title: Median heatplot generation
> ### Aliases: OneSmapperFlour
> 
> ### ** Examples
> 
> webshot::install_phantomjs()
Error in `process_initialize(self, private, command, args, stdin, stdout, …`:
! Native call to `processx_exec` failed
Caused by error in `chain_call(c_processx_exec, command, c(command, args), pty, pty_options, …`:
! cannot start processx process '/Users/biocbuild/Library/Application Support/PhantomJS/phantomjs' (system error 86, Bad CPU type in executable) @unix/processx.c:613 (processx_exec)
---
Backtrace:
 1. webshot::install_phantomjs()
 2. webshot:::is_phantomjs_version_latest(version)
 3. webshot:::phantomjs_version()
 4. webshot:::phantomjs_cmd_result("--version", quiet = TRUE)
 5. utils::capture.output(invisible(phantom_run(args = args, wait = wait, …
 6. base::withVisible(...elt(i))
 7. webshot:::phantom_run(args = args, wait = wait, quiet = quiet)
 8. callr::process$new(phantom_bin, args = args, stdout = "|", stderr = "|", …
 9. local initialize(...)
10. processx:::process_initialize(self, private, command, args, stdin, stdout, …
11. processx:::chain_call(c_processx_exec, command, c(command, args), pty, pty_options, …
12. | base::withCallingHandlers(do.call(".Call", list(.NAME, ...)), error = function(e…
13. | base::do.call(".Call", list(.NAME, ...))
14. | base::.handleSimpleError(function (e) …
15. | local h(simpleError(msg, call))
16. | processx:::throw_error(err, parent = e)
Execution halted
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 1 ERROR, 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.18-bioc-mac-arm64/meat/oneSENSE.Rcheck/00check.log’
for details.


Installation output

oneSENSE.Rcheck/00install.out

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###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL oneSENSE
###
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* installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-arm64/Resources/library’
* installing *source* package ‘oneSENSE’ ...
** using staged installation
** 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
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (oneSENSE)

Tests output


Example timings

oneSENSE.Rcheck/oneSENSE-Ex.timings

nameusersystemelapsed
FCStSNE0.0000.0000.001