2.9. Loading InterproScan results

In order to load an InterproScan results file, both the query and the subject records must be previously stored. The current version was tested for loading InterproScan analysis on proteins.

2.9.1. Load InterproScan subject records

python manage.py load_similarity_matches --file interproscan_result.xml --format interproscan-xml

• Loading this file can be faster if you increase the number of threads (–cpu).

2.9.2. Load InterproScan similarity

python manage.py load_similarity --file interproscan_result.xml --format interproscan-xml --so_query polypeptide --so_subject protein_match --program interproscan --programversion 5 --organism_query 'Oryza sativa' --organism_subject 'multispecies multispecies'

• Loading this file can be faster if you increase the number of threads (–cpu).

python manage.py load_similarity --help

–file	InterproScan XML file *
–format	interproscan-xml *
–so_query	Query Sequence Ontology term. (polypeptide) *
–so_subject	Subject Sequence Ontology term. (protein_match) *
–organism_query	Query’s organism name. eg. ‘Oryza sativa’. Cannot be ‘multispecies’. *
–organism_subject	Subject’s organism name eg. ‘Oryza sativa’. Put ‘multispecies multispecies’ if using a multispecies database. *
–program	Program *
–programversion	Program version *
–name	Name
–description	Description
–algorithm	Algorithm
–cpu	Number of threads

* required fields

2.9.3. Remove file

If, by any reason, you need to remove an InterproScan result set you should use the command remove_analysis.

python manage.py remove_analysis --help

• This command requires the analysis name (Analysis.sourcename)