Back to Multiple platform build/check report for BioC 3.14
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This page was generated on 2022-01-21 13:05:47 -0500 (Fri, 21 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.2 (2021-11-01) -- "Bird Hippie" 4329
tokay2Windows Server 2012 R2 Standardx644.1.2 (2021-11-01) -- "Bird Hippie" 4079
machv2macOS 10.14.6 Mojavex86_644.1.2 (2021-11-01) -- "Bird Hippie" 4140
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

CHECK results for SpidermiR on nebbiolo2


To the developers/maintainers of the SpidermiR package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/SpidermiR.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 1857/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
SpidermiR 1.24.0  (landing page)
Claudia Cava
Snapshot Date: 2022-01-20 01:55:04 -0500 (Thu, 20 Jan 2022)
git_url: https://git.bioconductor.org/packages/SpidermiR
git_branch: RELEASE_3_14
git_last_commit: 2316683
git_last_commit_date: 2021-10-26 12:26:19 -0500 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.4 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: SpidermiR
Version: 1.24.0
Command: /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:SpidermiR.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings SpidermiR_1.24.0.tar.gz
StartedAt: 2022-01-20 09:40:28 -0500 (Thu, 20 Jan 2022)
EndedAt: 2022-01-20 09:43:04 -0500 (Thu, 20 Jan 2022)
EllapsedTime: 156.6 seconds
RetCode: 0
Status:   OK  
CheckDir: SpidermiR.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:SpidermiR.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings SpidermiR_1.24.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.14-bioc/meat/SpidermiR.Rcheck’
* using R version 4.1.2 (2021-11-01)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘SpidermiR/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘SpidermiR’ version ‘1.24.0’
* 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 ‘SpidermiR’ can be installed ... OK
* checking installed package size ... OK
* checking package 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 ... NOTE
Namespaces in Imports field not imported from:
  ‘MAGeCKFlute’ ‘TCGAbiolinks’ ‘ggplot2’ ‘gplots’ ‘grDevices’
  ‘gridExtra’ ‘lattice’ ‘latticeExtra’
  All declared Imports should be used.
* 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 examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                                   user system elapsed
SpidermiRdownload_miRNAprediction 4.032  0.573   9.845
SpidermiRdownload_miRNAvalidate   2.799  0.096  42.129
SpidermiRdownload_drug_gene       2.123  0.429   8.439
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.14-bioc/meat/SpidermiR.Rcheck/00check.log’
for details.



Installation output

SpidermiR.Rcheck/00install.out

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##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD INSTALL SpidermiR
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.14-bioc/R/library’
* installing *source* package ‘SpidermiR’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** 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 (SpidermiR)

Tests output


Example timings

SpidermiR.Rcheck/SpidermiR-Ex.timings

nameusersystemelapsed
SpidermiRanalyze_degree_centrality0.0030.0000.003
SpidermiRanalyze_direct_net0.0040.0000.004
SpidermiRanalyze_direct_subnetwork0.0050.0000.005
SpidermiRanalyze_subnetwork_neigh0.0020.0000.003
SpidermiRdownload_drug_gene2.1230.4298.439
SpidermiRdownload_miRNAextra_cir0.1040.0004.675
SpidermiRdownload_miRNAprediction4.0320.5739.845
SpidermiRdownload_miRNAvalidate 2.799 0.09642.129
SpidermiRdownload_net0.2910.0031.735
SpidermiRprepare_NET0.6540.0281.801
SpidermiRquery_disease0.7550.0234.037
SpidermiRquery_networks_type0.0250.0000.526
SpidermiRquery_spec_networks0.0680.0000.330
SpidermiRquery_species0.0200.0000.196