v2.0.0

New Major version:

• defense-finder is now able to run defense-finder-models >= v2, in which all models (except Cas and RM) are in a single model directory.
• add retrocompatibility with older models
• add a check to let the user know whether they run the last version of defense-finder-models or not. (checks for new updates once a month)
• pin to Macsyfinder version 2.1.4
• remove support for python < 3.10

v1.3.0

This release adds AntiDefenseFinder option to detect anti-defense systems

• --antidefense to run AntiDefense models with DefenseFinder
• --antidefense-only to run only AntiDefense models
• Also add pandas posttreament

v1.2.2

This release fix the following

• bug with macsyfinder that is fixed but not yet deployed (gem-pasteur/macsyfinder#69). So we pin the previous macsyfinder version that did not have the bug (v2.1.1 of macsyfinder).
• bug when input file is multiple nucleic fasta file (#48)

We added tests as well.

v1.2.0 Add possibility to run DF on nucleotide fasta file

Now user can input nucleotide fasta file (single or multi fasta). DF detects automatically what type of file is it and continues depending on the input.

The output files have been renamed to contain the name of the input file to prevent overwriting files.

Logging messages are added

v1.1.1

New versions with minor updates :

• update to macsyfinder v2
• add test files
• fix installation bugs

Add possibility to specify another directory for the models

This argument is available for defense-finder run and defense-finder update :

--models-dir TEXT Specify a directory containing your models.