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AnantharamanLab / METABOLIC

A scalable high-throughput metabolic and biogeochemical functional trait profiler
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MW-score_result.xlsx file missing phyla #91

Open JBuongio opened 2 years ago

JBuongio commented 2 years ago

Hi there, I just re-ran a subset of my data through METABOLIC-C. The last time I ran the program, I pointed the call to the entire list of transcriptome bams and I received molecular weight scores per phylum. However, this time, when I run the program while aiming to get data from only a subset of my bams, there is no by-phylum breakdown found in the Excel file like last time. Additionally, the community plot and the Sankey diagram are both blank. The individual nutrient diagrams were produced, and some edges are colored red which has me think there was not a problem reaching the bam files. What am I doing wrong? Thank you for your help!

perl METABOLIC-C.pl -t 40 -m-cutoff 0.75 -in-gn /home/lloydlab/klds1515/SVA08.16_Metagenomes/071817KLmetagenome-45705703/Bins_from_Derep_Dastool/Fasta_files/Indiv_Anvio_fastas -kofam-db full -r /klds1515/SVA08.16_Metagenomes/071817KLmetagenome-45705703/Bins_from_Derep_Dastool/METABOLIC/VK_transcriptomic_read_locations.txt -rt metaT -o ~/klds1515/SVA08.16_Metagenomes/071817KLmetagenome-45705703/Bins_from_Derep_Dastool/METABOLIC/METABOLIC-C_transcripts/METABOLIC-C_VK

ChaoLab commented 2 years ago

I guess GTDBTk did not work. So all the files related to taxonomy assignment were not there