| Back to Build/check report for BioC 3.18: simplified long |
|
This page was generated on 2023-05-10 10:04:30 -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 FELLA package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/FELLA.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 683/2194 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| FELLA 1.21.0 (landing page) Sergio Picart-Armada
| kunpeng1 | Linux (Ubuntu 22.04.1 LTS) / aarch64 | OK | OK | OK | |||||||||
| Package: FELLA |
| Version: 1.21.0 |
| Command: /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:FELLA.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings FELLA_1.21.0.tar.gz |
| StartedAt: 2023-05-09 15:55:53 -0000 (Tue, 09 May 2023) |
| EndedAt: 2023-05-09 16:31:21 -0000 (Tue, 09 May 2023) |
| EllapsedTime: 2127.9 seconds |
| RetCode: 0 |
| Status: OK |
| CheckDir: FELLA.Rcheck |
| Warnings: 0 |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD check --install=check:FELLA.install-out.txt --library=/home/biocbuild/bbs-3.17-bioc/R/site-library --timings FELLA_1.21.0.tar.gz
###
##############################################################################
##############################################################################
* using log directory ‘/home/biocbuild/bbs-3.17-bioc/meat/FELLA.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 ‘FELLA/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘FELLA’ version ‘1.21.0’
* 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 ‘FELLA’ 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 ... 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 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 ... NOTE
buildGraphFromKEGGREST: no visible global function definition for
‘capture.output’
Undefined global functions or variables:
capture.output
Consider adding
importFrom("utils", "capture.output")
to your NAMESPACE file.
* 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... OK
* 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 ...
‘musmusculus.Rmd’ using ‘UTF-8’... OK
‘quickstart.Rmd’ using ‘UTF-8’... OK
‘zebrafish.Rmd’ using ‘UTF-8’... OK
‘FELLA.Rnw’ using ‘UTF-8’... OK
OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE
Status: 1 NOTE
See
‘/home/biocbuild/bbs-3.17-bioc/meat/FELLA.Rcheck/00check.log’
for details.
FELLA.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### /home/biocbuild/bbs-3.17-bioc/R/bin/R CMD INSTALL FELLA ### ############################################################################## ############################################################################## * installing to library ‘/home/biocbuild/bbs-3.17-bioc/R-devel_2023-03-12_r83975-bin/site-library’ * installing *source* package ‘FELLA’ ... ** using staged installation ** R ** data ** 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 (FELLA)
FELLA.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(FELLA)
>
> test_check("FELLA")
|
| | 0%
|
|============== | 20%
|
|============================ | 40%
|
|========================================== | 60%
|
|======================================================== | 80%
|
|======================================================================| 100%
|
| | 0%
|
|======= | 10%
|
|============== | 20%
|
|===================== | 30%
|
|============================ | 40%
|
|=================================== | 50%
|
|========================================== | 60%
|
|================================================= | 70%
|
|======================================================== | 80%
|
|=============================================================== | 90%
|
|======================================================================| 100%
|
| | 0%
|
|======= | 10%
|
|============== | 20%
|
|===================== | 30%
|
|============================ | 40%
|
|=================================== | 50%
|
|========================================== | 60%
|
|================================================= | 70%
|
|======================================================== | 80%
|
|=============================================================== | 90%
|
|======================================================================| 100%
|
| | 0%
|
|======= | 10%
|
|============== | 20%
|
|===================== | 30%
|
|============================ | 40%
|
|=================================== | 50%
|
|========================================== | 60%
|
|================================================= | 70%
|
|======================================================== | 80%
|
|=============================================================== | 90%
|
|======================================================================| 100%
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 168 ]
>
> proc.time()
user system elapsed
21.464 3.552 51.229
FELLA.Rcheck/FELLA-Ex.timings
| name | user | system | elapsed | |
| FELLA | 0.285 | 0.016 | 0.307 | |
| FELLA.sample | 0.014 | 0.000 | 0.014 | |
| checkArguments | 0.002 | 0.000 | 0.002 | |
| data-funs | 2.677 | 0.156 | 2.834 | |
| enrich-funs | 3.166 | 0.060 | 3.227 | |
| export-funs | 0.235 | 0.000 | 0.235 | |
| getBackground | 0.399 | 0.048 | 0.447 | |
| getCom | 0.013 | 0.000 | 0.013 | |
| getExcluded | 0.015 | 0.000 | 0.015 | |
| getGraph | 0.013 | 0.001 | 0.013 | |
| getInfo | 0.009 | 0.003 | 0.013 | |
| getInput | 0.015 | 0.000 | 0.015 | |
| getMatrix | 0.024 | 0.000 | 0.024 | |
| getName | 0.013 | 0.000 | 0.013 | |
| getPscores | 0.034 | 0.000 | 0.034 | |
| getPvaluesSize | 0.031 | 0.000 | 0.031 | |
| getStatus | 0.013 | 0.000 | 0.013 | |
| getSums | 0.476 | 0.040 | 0.516 | |
| getValid | 0.022 | 0.004 | 0.026 | |
| infere.con2ec | 0.003 | 0.000 | 0.003 | |
| input.sample | 0.001 | 0.000 | 0.001 | |
| is.FELLA.DATA | 0.012 | 0.000 | 0.012 | |
| is.FELLA.USER | 0.021 | 0.004 | 0.025 | |
| largestcc | 0.019 | 0.000 | 0.019 | |
| launchApp | 0.001 | 0.000 | 0.000 | |
| listApprox | 0 | 0 | 0 | |
| listCategories | 0 | 0 | 0 | |
| listInternalDatabases | 0.002 | 0.000 | 0.001 | |
| listMethods | 0.001 | 0.000 | 0.001 | |
| mytriangle | 0.019 | 0.000 | 0.019 | |
| plotBipartite | 0.071 | 0.000 | 0.071 | |
| plotLegend | 0.033 | 0.000 | 0.033 | |
| sanitise | 0 | 0 | 0 | |