ariba

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LooseVersion' object has no attribute 'version

5

Any help! Running ariba prepareref with: /Users/mohamedabouelkhair/miniconda3/envs/ariba/bin/ariba prepareref --verbose -f ref_seqs.fa -m metadata.tsv --threads 1 PREPAREREF Traceback (most recent call last): File "/Users/mohamedabouelkhair/miniconda3/envs/ariba/bin/ariba", line 312, in args.func(args) File "/Users/mohamedabouelkhair/miniconda3/envs/ariba/lib/python3.6/site-packages/ariba/tasks/prepareref.py", line...

mabouelk

Reason for pymummer<=0.10.3 ?

2

``` ERROR: ariba 2.13.5 has requirement pymummer

tseemann

Question about ariba summary

3

Query from RT: I don’t understand a summary ariba is running, where what looks like good hits get discarded. If I look at e.g. ariba_BBVQ01_ariba_eff_out/report.tsv the hits for cluster 38...

ssjunnebo

hi sir： i want to use ariba with single-ended reads for same clinic sample， how should I do ? thanks

feihongloveworld

It would be great if you could list SPAdes and the compatible versions on the README. The `dockerfile` shows SPAdes 3.13.1. Have any more recent versions of SPAdes been tested...

kapsakcj

Hi everyone, Does anybody know by chance if ARIBA supports data from Nanopore technologies? Thanks in advance

Grandjean-Lapierre-Lab

First of all, thanks to the authors for yet another great tool. I've been running Ariba to infer presence/absence of 4 genes of interest. It runs without problems but when...

GonzaloYebra

Dear ARIBA, After running summary using the command below, I got everything in the tsv file. ariba summary summary_output aribaRun/outRun_*/report.tsv --preset all_no_filter In the tsv file of summary result, you...

KuangXY3

Dear developers, Similarly as stated previously in #221 I have a couple of questions understanding the results and output generated by ARIBA. After reading the information available in your [wiki](https://github.com/sanger-pathogens/ariba/wiki/Task:-run#report-file)...

JFsanchezherrero

Wrong naming of virulence genes when using VirulenceFinder database

1

Hi, We have tried the VirulenceFinder database, but when we look at the output files the naming of the virulence genes seems to relate to "cluster numbers". Looking at individual...

Camilsek