Hello,

I am trying to bin my MAGs for my metagenomic samples. I am trying to use Metabat2, but it says that I have 0 bins when there are over 1million contigs in a sample, and many are over 1500 bp. Here is my job submission and my log report. Can you please tell me what I am doing wrong?

Job script:

/bin/sh

----------------Parameters----------------------

$ -S /bin/sh

$ -q sThC.q

$ -l mres=3G,h_data=3G,h_vmem=3G

$ -cwd

$ -j y

$ -N metabat2_practice

$ -o metabat2_practice.log

$ -m bea

$ -M lyisrae1@jhu.edu

----------------Modules-------------------------

module load tools/conda/3.11 #

----------------Your Commands-------------------

# echo + date job $JOB_NAME started in $QUEUE with jobID=$JOB_ID on $HOSTNAME # source activate binning jgi_summarize_bam_contig_depths --outputDepth 88_more-kmers_depth.txt 88_more-kmers_sorted.bam mkdir Metabin metabat2 -i 88_more-kmers_contigs.fasta -a 88_more-kmers_depth.txt -o ../Metabat/Metabin/bin -m 1500 conda deactivate binning # echo = date job $JOB_NAME done

Here is the logfile. metabat2_practice.log

Thank you so much for your help!

nf-core / mag

Metabat2 said I have 0 bins. May I please have help to fix it? #696