metaSpades can't input two or more files

[siduanmiao]

Description of bug

I want to use spades.py --meta to do co-assembly but I find that I can't input tow or more files. In the past issues you mentioned that we should make this samples as a single library, so I want to know: Is it different if I cat them as a single fasta.gz or using "--pe" to input many fastq files.

I don't really understand what is co-assembly, just cat the files into a file and assembly or using other method such as using the similar features of other samples to improve the length of this sample.

spades.log

NO LOG

params.txt

NO params.txt

SPAdes version

SPAdes genome assembler v3.14.1

Operating System

CentOS Linux 7

Python Version

python 3.9

Method of SPAdes installation

conda

No errors reported in spades.log

• Yes

[asl]

Hello

Well, if you do not really know what co-assembly is, why do you want to do it in the first place? :) There is no difference from specifying multiple files for a single library compared to merging them by hands

[siduanmiao]

Thanks!!My professor told me that the spades is the most popular tool for metagenome assembly, and asked me to use metaspades to assembly our group's 16 samples last week, but I am the new of this field. Anyway, thank you a lot, and also your group's excellent job!