p2rank/breaking-changes.md

Breaking changes

Introduction

This file collects backwards incompatible changes that have potential to break code that uses P2Rank.

These include:

• changes in the command line interface
• changes in the input/output format
• changes in default behaviour

All changes of that type should be rare and should be all listed here.

List of changes

2.3-dev.*

• param -extra_features was renamed to -features

2.2

• param -conservation_dir (type: String) was renamed to -conservation_dirs (type: List<String>)
• column probability was added to *_predictions.csv output file