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

Shepherd, Lori Lori@Shepherd @ending from Ro@wellP@rk@org
Wed Dec 12 16:36:22 CET 2018

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

Bioc-devel using r-project.org mailing list

This email message may contain legally privileged and/or confidential information.  If you are not the intended recipient(s), or the employee or agent responsible for the delivery of this message to the intended recipient(s), you are hereby notified that any disclosure, copying, distribution, or use of this email message is prohibited.  If you have received this message in error, please notify the sender immediately by e-mail and delete this email message from your computer. Thank you.
	[[alternative HTML version deleted]]

More information about the Bioc-devel mailing list