Open wsh-1046 opened 2 weeks ago
After I changed the script in HGT_workflow_distant.py in order to ignore the problem "KeyError:'phylum'",I have found that when I got into the next step,it would be interrupted often by the problem like this"This is gene 3------------------ XP_018426332.1 Yes, blast file already exists, nice! Attention: please check the gene accession id!" Please tell me how to deal with it.Thanks!
Hi le-yuan: When I was operating the step "python HGT_workflow_distant.py Nanorana_parkeri_SimID.faa", I got a problem,which show below: Taxid by BLAST: 7917 Taxid by BLAST: 13616 Alien index: 299.19 This is a HGT event Accession_id: AAP36269.1 Evalue: 1.16e-130 Traceback (most recent call last): File "~/HGT/HGTphyloDetect/main/HGT_workflow_distant.py", line 222, in
main()
File "~/HGT/HGTphyloDetect/main/HGT_workflow_distant.py", line 196, in main
taxid2name = ncbi.get_taxid_translator([ranks2lineage['phylum'], ranks2lineage['class'], ranks2lineage['superkingdom']])