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Ecogenomics / CheckM

Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes
https://ecogenomics.github.io/CheckM/
GNU General Public License v3.0
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WARNING: Expected all files to contain sequences in amino acid space. #381

Closed mehmetday closed 1 year ago

mehmetday commented 1 year ago

I am at using checkM at the binning control step with the following commands;

checkm analyze --ali --nt -g -x fa lineage_set_marker.txt ../metaBAT/bins/ out_dir

[2023-09-30 02:44:48] WARNING: Expected all files to contain sequences in amino acid space. [2023-09-30 02:44:48] WARNING: File ../metaBAT/bins/bin.1.fa appears to contain nucleotide sequences.

is this okay?

mehmetday commented 1 year ago

This was caused by the -g flag. Not it is okay.