KeyError: '40075' Easy coassembly binning mode

[gabrieleghiotto]

Hi, I reported the following error.

2024-02-07 10:09:00 rasputin SemiBin[3664292] INFO Training model and clustering.
2024-02-07 10:09:01 rasputin SemiBin[3664292] INFO Start training from one sample.
2024-02-07 10:09:13 rasputin SemiBin[3664292] INFO Training model...
0%| | 0/15 [05:43<?, ?it/s]
Traceback (most recent call last):
File "/home/bioinfo/anaconda3/envs/semibin2/bin/SemiBin", line 10, in
sys.exit(main1())
^^^^^^^
File "/home/bioinfo/anaconda3/envs/semibin2/lib/python3.12/site-packages/SemiBin/main.py", line 1514, in main1
main2(args, is_semibin2=False)
File "/home/bioinfo/anaconda3/envs/semibin2/lib/python3.12/site-packages/SemiBin/main.py", line 1481, in main2
single_easy_binning(
File "/home/bioinfo/anaconda3/envs/semibin2/lib/python3.12/site-packages/SemiBin/main.py", line 1162, in single_easy_binning
training(logger, [args.contig_fasta],
File "/home/bioinfo/anaconda3/envs/semibin2/lib/python3.12/site-packages/SemiBin/main.py", line 1001, in training
model = train(
^^^^^^
File "/home/bioinfo/anaconda3/envs/semibin2/lib/python3.12/site-packages/SemiBin/semi_supervised_model.py", line 218, in train
train_input_1.append(train_data_input[contig2ix[str(link[0])]])
~~~~~~~~~^^^^^^^^^^^^^^
KeyError: '40075'

SemiBinRun.log

I attached also the log file. Could you please provide suggestion on how to solve it?

Best,
Gabriele

[psj1997]

Hi,

Sorry for the late reply.

Can you show me the command line you used and the name of contig in the fasta file?

Sincerely
Shaojun

[gabrieleghiotto]

SemiBin2 single_easy_bin -i contig.fa -b */.sorted.bam -o co-assembly_output

output.txt

The fasta file used was bigger, I attached only the first 10 sequences. The header is an incremental number from 1 to N.