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run_FragGeneScan.pl error - Hmmsearch failed #36
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Hi, It seems that no relevant genes have been identified. MetaBinner typically runs on sequences longer than 1000bp. If you wish to run it on sequences longer than 200bp, you can try adding the parameter '-l 200'. However, it's not guaranteed that you will obtain suitable results. MetaBinner can potentially be installed and run properly in a conda environment with versions of Python other than 3.7.6. Best, |
Dear Ziye Wang, Edit: Sincerely, |
Dear Ziye Wang,
I am facing an error and I need your help and insight. I have installed MetaBinner via source code (based on the metabinner_env.yaml file). The processes related to the coverage profile and the composition profile run without a problem. When running "run_metabinner.sh" via the following command:
I get the following error message:
I have traced the error back to when "run_FragGeneScan.pl" is run which outputs an empty "contigs_formated_200.fa.frag.faa" file, which in turn results in no "contigs_formated_200.fa.bacar_marker.hmmout" file being created (thus Hmmsearch fails). FragGeneScan also outputs the "contigs_formated_200.fa.frag.err" file which contains the following:
awk: cmd. line:1: fatal: cannot open file `/home/rte/PSP_06_03_2024/results_sample_19/contigs/contigs_formated_200.fa.frag.out' for reading (No such file or directory)
Sincerely,
Georgios Filis
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