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Just can find one Bin in the final.txt

Open Bioinformations opened this issue 1 year ago • 5 comments

Hello When i use the this command :"python mbcclr --resume -r nanoflit.fasta -o test_output -e umap -c 613187 -k 5 -t 100" , and the finnal.txt just can find one Bin-1. I am not sure that some parameters are set correctly.

The operation of the software are as follows: 2023-02-22 09:16:59,945 - INFO - Command mbcclr --resume -r PGA-nanoflit.fasta -o test_output2 -e umap -c 613187 -k 5 -t 100 2023-02-22 09:16:59,945 - INFO - Resuming the program from previous checkpoints 2023-02-22 09:16:59,945 - INFO - Counting K-mers INPUT FILE PGA-nanoflit.fasta OUTPUT FILE test_output2/profiles/3mers K_SIZE 5 THREADS 100 Profile Size 512 Total 5-mers 1024 Loaded Reads 6131871 2023-02-22 09:40:24,180 - INFO - Counting K-mers complete 2023-02-22 09:40:24,181 - INFO - Counting 15-mers INPUT FILE PGA-nanoflit.fasta OUTPUT FILE test_output2/profiles/15mers-counts THREADS 100 Loaded Reads 6131871 WRITING TO FILE COMPLETED : Output at - test_output2/profiles/15mers-counts 2023-02-22 09:48:27,783 - INFO - Counting 15-mers complete 2023-02-22 09:48:27,784 - INFO - Generating 15-mer profiles K-Mer file test_output2/profiles/15mers-counts LOADING KMERS TO RAM FINISHED LOADING KMERS TO RAM INPUT FILE PGA-nanoflit.fasta OUTPUT FILE test_output2/profiles/15mers THREADS 100 BIN WIDTH 10 BINS IN HIST 32 Loaded Reads 6131871 COMPLETED : Output at - test_output2/profiles/15mers 2023-02-22 09:54:35,125 - INFO - Generating 15-mer profiles complete 2023-02-22 09:54:35,126 - INFO - Sampling Reads 2023-02-22 10:07:02,935 - INFO - Sampling reads complete 2023-02-22 10:07:02,936 - INFO - Binning sampled reads

Bioinformations avatar Feb 22 '23 03:02 Bioinformations