mv: cannot stat '/home/adm/dingyi/metabolicC/Output_energy_flow/Energy_plot/network.plot.pdf': No such file or directory

[yi-dingg]

Hello,
When I use METABOLIC/METABOLIC-C.2nd_run.pl, I get the following error message. File "All_gene_collections_mapped.depth.217pc.txt " and "MW-score_result.txt" are empty. Looking forward to your response.
[2024-07-29 12:19:12] Skip Prodigal running for a 2nd run
[2024-07-29 12:45:12] Skip hmmsearch running for a 2nd run
[2024-07-29 16:15:37] Skip printing out each hmm faa collection
[2024-07-29 16:15:37] Skipe doing the KEGG module result calculating
[2024-07-29 16:15:37] Skip doing the KEGG identifier (KO id) result calculating
[2024-07-29 16:15:37] Skip searching CAZymes by dbCAN2
[2024-07-29 16:15:37] Skip searching MEROPS peptidase
[2024-07-29 16:15:37] Skip generating METABOLIC table
[2024-07-29 16:15:37] Drawing element cycling diagrams...
[2024-07-30 00:42:59] Drawing element cycling diagrams finished
[2024-07-30 00:42:59] Drawing metabolic handoff diagrams...
[2024-07-30 00:43:37] Drawing metabolic handoff diagrams finished
[2024-07-30 00:43:37] Drawing energy flow chart...
mv: cannot stat '/home/adm/dingyi/metabolicC/Output_energy_flow/Energy_plot/network.plot.pdf': No such file or directory
mv: cannot stat '/home/adm/dingyi/metabolicC/Output_energy_flow/Energy_plot/network.plot.pdf': No such file or directory
[2024-07-30 00:43:47] Drawing energy flow chart finished
[2024-07-30 00:43:47] Calculating MW-score ...
[2024-07-30 00:44:21] Calculating MW-score is done
METABOLIC-C was done, the total running time: 12:25:09 (hh:mm:ss)

My command is:
nohup perl /home/adm/software/METABOLIC/METABOLIC-C.2nd_run.pl -in-gn /home/adm/dingyi/bins_rename -r /home/adm/dingyi/217pc_reads_path.txt -o /home/adm/dingyi/metabolicC -2nd-run true -2nd-run-suffix 217pc -t 30 &> 217_2nd_run.out &

[patriciatran]

Hi, the script to make the energy flow chart is here: https://github.com/AnantharamanLab/METABOLIC/blob/master/draw_metabolic_Sankey_diagram.R
Do you know if the input files Energy_flow_input <- userprefs[1] # Path to to Energy_flow_input.txt , a file named Energy_flow_input.txt is present in one of your output folders?