[Bioc-devel] ClassifyR Check Error on Linux and MacOS Systems

[Shepherd, Lori]

I tried to build/check your package locally and actually get a different ERROR in the build process ...


You might try using devtools::run_examples()   - it runs only the examples in the package

When I use devtools::run_examples()



> ### Name: edgesToHubNetworks
> ### Title: Convert a Two-column Matrix or Data Frame into a Hub Node List
> ### Aliases: edgesToHubNetworks
>
> ### ** Examples
>
>   interactor <- sapply(1:10000, function(index)
+                        paste(c(sample(LETTERS, 3), sample(1:9, 1)), collapse = ''))

>   otherInteractor <- sapply(1:10000, function(index)
+                        paste(c(sample(LETTERS, 3), sample(1:9, 1)), collapse = ''))

>   edges <- data.frame(interactor, otherInteractor, stringsAsFactors = FALSE)

>   edgesToHubNetworks(edges, minCardinality = 4)
Error in object using sets[[1]] : subscript out of bounds
In addition: Warning messages:
1: roxygen2 requires Encoding: UTF-8
2: Removed 2 rows containing missing values (geom_bar).
Loading ClassifyR




I ran this using Bioc 3.9 R 3.6

> sessionInfo()

R Under development (unstable) (2018-12-10 r75821)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Ubuntu 14.04.5 LTS




Lori Shepherd

Bioconductor Core Team

Roswell Park Cancer Institute

Department of Biostatistics & Bioinformatics

Elm & Carlton Streets

Buffalo, New York 14263

________________________________
From: Bioc-devel <bioc-devel-bounces using r-project.org> on behalf of Dario Strbenac <dstr7320 using uni.sydney.edu.au>
Sent: Thursday, December 6, 2018 8:00:05 PM
To: bioc-devel using r-project.org
Subject: [Bioc-devel] ClassifyR Check Error on Linux and MacOS Systems

Good day,

There is an error for ClassifyR on malbec1 and merida1 caused by a documentation example. However, it doesn't occur on tokay1. Can I get more information about which example is emitting the error on malbec1 server?

--------------------------------------
Dario Strbenac
University of Sydney
Camperdown NSW 2050
Australia

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