When creating an annotation DB file from a taxref.sqlite file. No annotations are made. The only input required in the documentation is the taxref file, created from taxonomic_composition.py, and a gff directory with all gff files. However when I look at the code, the sys.args is looking for a few more arguments.
The data were too big to attach so I have only included the mappings file. From this, a taxref.sqlite3 file was made (547 MB). The gff files were downloaded from uniprot for the 2 species Escherichia coli and Staphylococcus aureus.
Test_mappings.txt
When creating an annotation DB file from a taxref.sqlite file. No annotations are made. The only input required in the documentation is the taxref file, created from taxonomic_composition.py, and a gff directory with all gff files. However when I look at the code, the sys.args is looking for a few more arguments.
The data were too big to attach so I have only included the mappings file. From this, a taxref.sqlite3 file was made (547 MB). The gff files were downloaded from uniprot for the 2 species Escherichia coli and Staphylococcus aureus.
Test_mappings.txt