[hmmsearch]	Error: Failed to open sequence file /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Enterobacter/busco_stats/run_spades/augustus_output/extracted_proteins/POG091H01Q4.faa.2 for reading
[hmmsearch]	Error: Failed to open sequence file /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Enterobacter/busco_stats/run_spades/augustus_output/extracted_proteins/POG091H01NJ.faa.1 for reading
[hmmsearch]	Error: Failed to open sequence file /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Enterobacter/busco_stats/run_spades/augustus_output/extracted_proteins/POG091H0041.faa.2 for reading
[hmmsearch]	Error: Failed to open sequence file /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Enterobacter/busco_stats/run_spades/augustus_output/extracted_proteins/POG091H00J8.faa.3 for reading
[hmmsearch]	Error: Failed to open sequence file /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Enterobacter/busco_stats/run_spades/augustus_output/extracted_proteins/POG091H02LW.faa.2 for reading
[hmmsearch]	Error: Failed to open sequence file /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Enterobacter/busco_stats/run_spades/augustus_output/extracted_proteins/POG091H0220.faa.2 for reading
[hmmsearch]	Error: Failed to open sequence file /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Enterobacter/busco_stats/run_spades/augustus_output/extracted_proteins/POG091H02FP.faa.1 for reading
[hmmsearch]	Error: Failed to open sequence file /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Enterobacter/busco_stats/run_spades/augustus_output/extracted_proteins/POG091H00NK.faa.1 for reading
[hmmsearch]	Error: Failed to open sequence file /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Enterobacter/busco_stats/run_spades/augustus_output/extracted_proteins/POG091H01SD.faa.2 for reading
[hmmsearch]	Error: Failed to open sequence file /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Enterobacter/busco_stats/run_spades/augustus_output/extracted_proteins/POG091H00IF.faa.1 for reading
[hmmsearch]	Error: Failed to open sequence file /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Enterobacter/busco_stats/run_spades/augustus_output/extracted_proteins/POG091H02KX.faa.1 for reading
[hmmsearch]	Error: Failed to open sequence file /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Enterobacter/busco_stats/run_spades/augustus_output/extracted_proteins/POG091H00ZY.faa.2 for reading
[hmmsearch]	Error: Failed to open sequence file /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Enterobacter/busco_stats/run_spades/augustus_output/extracted_proteins/POG091H01FV.faa.2 for reading
[hmmsearch]	Error: Failed to open sequence file /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Enterobacter/busco_stats/run_spades/augustus_output/extracted_proteins/POG091H02FP.faa.3 for reading
[hmmsearch]	Error: Failed to open sequence file /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Enterobacter/busco_stats/run_spades/augustus_output/extracted_proteins/POG091H01JZ.faa.2 for reading
[hmmsearch]	Error: Failed to open sequence file /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Enterobacter/busco_stats/run_spades/augustus_output/extracted_proteins/POG091H0444.faa.2 for reading
[hmmsearch]	Error: Failed to open sequence file /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Enterobacter/busco_stats/run_spades/augustus_output/extracted_proteins/POG091H02DK.faa.2 for reading
[hmmsearch]	Error: Failed to open sequence file /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Enterobacter/busco_stats/run_spades/augustus_output/extracted_proteins/POG091H00NK.faa.3 for reading
[hmmsearch]	Error: Failed to open sequence file /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Enterobacter/busco_stats/run_spades/augustus_output/extracted_proteins/POG091H01RS.faa.2 for reading
missing and fragmented buscos from the ancestral_variants file...
Running tblastn, writing output to /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Enterobacter/busco_stats/run_spades/blast_output/tblastn_spades_missing_and_frag_rerun.tsv...
[tblastn]	1 of 1 task(s) completed at 01/24/2021 16:14:55
Maximum number of candidate contig per BUSCO limited to: 3
Getting coordinates for candidate regions...
****** Step 2/3, current time: 01/24/2021 16:14:55 ******
Training Augustus using Single-Copy Complete BUSCOs:
Converting predicted genes to short genbank files at 01/24/2021 16:14:55...
All files converted to short genbank files, now running the training scripts at 01/24/2021 16:14:56...
Pre-Augustus scaffold extraction...
Re-running Augustus with the new metaparameters, number of target BUSCOs: 70
[augustus]	70 of 138 task(s) completed at 01/24/2021 16:14:57
[augustus]	83 of 138 task(s) completed at 01/24/2021 16:14:57
[augustus]	111 of 138 task(s) completed at 01/24/2021 16:14:57
[augustus]	125 of 138 task(s) completed at 01/24/2021 16:14:57
[augustus]	138 of 138 task(s) completed at 01/24/2021 16:14:57
Extracting predicted proteins...
****** Step 3/3, current time: 01/24/2021 16:15:00 ******
Running HMMER to confirm orthology of predicted proteins:
[hmmsearch]	59 of 84 task(s) completed at 01/24/2021 16:15:01
[hmmsearch]	76 of 84 task(s) completed at 01/24/2021 16:15:01
[hmmsearch]	84 of 84 task(s) completed at 01/24/2021 16:15:01
Results:
C:54.8%[S:50.7%,D:4.1%],F:16.2%,M:29.0%,n:148
81 Complete BUSCOs (C)
75 Complete and single-copy BUSCOs (S)
6 Complete and duplicated BUSCOs (D)
24 Fragmented BUSCOs (F)
43 Missing BUSCOs (M)
148 Total BUSCO groups searched
BUSCO analysis done. Total running time: 38.35190987586975 seconds
Results written in /DATB/markop/CPB/CPB_rcf_DNAseq/quast/Enterobacter/busco_stats/run_spades/