Spades, No Read Error Correction

[ufaroooq]

Description of bug

Hello

I am using **SPAdes 4.0.0** to assemble some fungal genomes from Illumina short read PE150 data. My data is at 100x coverage. and i used the following command to run spades

spades.py -k 21 33 55 77 99 111 127 --isolate -1 ILL01_trim_1.fq.gz -2 ILL01_trim_2.fq.gz -t 48 -o ./ILL01/

Assembly process completed without any issue but the log file shows a specific line Mode: ONLY assembling (without read error correction)

My Question:

1. Isn't Read-error0correction a default behavior of spades if peforming assembly in 1 command without specifying any flags ?
2. Which optione/flags i should include to perform read-error-correction and them genome assembly ?

spades.log

spades.log

params.txt

params.txt

SPAdes version

SPAdes v4.0.0

Operating System

Linux-4.18.0-425.13.1.el8_7.x86_64-x86_64-with-glibc2.28

Python Version

Python 3.13.0

Method of SPAdes installation

conda

No errors reported in spades.log

• [X] Yes

[asl]

Isolate mode does not include read error correction by default, it could be skipped for high-quality input data having even coverage.