[BUG] anvi-script-visualize-split-coverages error with SNV data

[mschecht]

Short description of the problem

anvi-script-visualize-split-coverages is unable to produce a pdf when given SNV data.

anvi'o version

$ anvi-self-test --version

Anvi'o .......................................: hope (v7-dev)

Profile database .............................: 35
Contigs database .............................: 20
Pan database .................................: 14
Genome data storage ..........................: 7
Auxiliary data storage .......................: 2
Structure database ...........................: 2
Metabolic modules database ...................: 2
tRNA-seq database ............................: 1

System info

macOS Big Sur 11.2.3

Detailed description of the issue

anvi-script-visualize-split-coverages is unable to produce a pdf when given SNV data via the flag --snv-data. However it works perfectly if no SNV data is provided.

You can produce this by following the anvi-script-visualize-split-coverages tutorial until the part where it describes visualizing SNVs.

Thanks in advance for the help!

[meren]

I just run the entire set of commands in that tutorial and everything worked for me :/

[mschecht]

Thanks for running it on your end! I unfortunately am still getting the same error as above. Maybe it's my R version?

[meren]

Perhaps. Mine is 3.5.1.

[nvpatin]

@mschecht did you ever resolve this issue? I am having the same problem generating split coverages with SNV data.

[nvpatin]

I was able to solve it by downgrading R to version 3.5.1, but I got the following warning: "Warning message: As of rlang 0.4.0, dplyr must be at least version 0.8.0.

• dplyr 0.7.8 is too old for rlang 0.4.5.
• Please update dplyr with install.packages("dplyr") and restart R.

Nevertheless it created the PDF so for now I think that is the best solution.