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AnantharamanLab / METABOLIC

A scalable high-throughput metabolic and biogeochemical functional trait profiler
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When running metabolic-c, I get the following error: #190

Open HAIS-st opened 3 months ago

HAIS-st commented 3 months ago

When running metabolic-c, I get the following error: rm: cannot remove '/home/result/SCS_003_5/metabolic/.bt2': No such file or directory rm: cannot remove '/home/result/SCS_003_5/metabolic/.bt2': No such file or directory rm: cannot remove '/home/result/SCS_003_5/metabolic/.bam': No such file or directory rm: cannot remove '/home/result/SCS_003_5/metabolic/.bam': No such file or directory rm: cannot remove '/home/result/SCS_003_5/metabolic/.bai': No such file or directory rm: cannot remove '/home/result/SCS_003_5/metabolic/.bai': No such file or directory Here's my script: perl /opt/software/METABOLIC/METABOLIC-C.pl -in-gn /home/result/${file_name}/assembly -r /home/result/${file_name}/pair.txt -o /home/result/${file_name}/metabolic -t 10

HAIS-st commented 3 months ago

@patriciatran

patriciatran commented 3 months ago

From reading these errors, it seems like a read mapping error. Can you provide examples (a few lines) of the way you formatted your pair.txt files please?

HAIS-st commented 3 months ago

Of course, here is my file pair.txt