Changelog

All notable changes to this project will be documented in this file.

The format is based on Keep a Changelog, and this project adheres to Semantic Versioning.

dev

[3.1.0]

Added

Added support to run the tool without SSL chain verification for users behind proxy servers who act as MITM

Changed

Scoring formula changed to: $$ score = 0.8 * \sum_{tool}^{tools provided} f(fusion, tool) + 0.2 * \sum_{db}^{dbs provided} g(fusion, db)*w(db) $$

Weights for databases are as follows:
- COSMIC (50)
- MITELMAN (50)
- FusionGDB2 (0)

[3.0.0]

Added

Options --no-cosmic/--no-fusiongdb2/--no-mitelman to download and run without those specified databases

[2.1.8]

Removed

Removed FusionGDB

2.1.5

Added

Implemented Jaffa by @mikewlloyd

2.1.4

Fixed

Using header columns to extract values from the fusion outputs

2.1.3

Fixed

Missing escaping when saving a fusion page (#34)

2.1.2

Added

New parameter --allow-multiple-gene-symbols, by default False

Fixed

Case when fusion gene symbol can't be uniquely determined and multiple fusion options are provided (#30)

Changed

renamed tool_cutoff to tool-cutoff

2.1.1

Changed

moved databases from GitHub to Sourceforge

2.1.0

Added

sync option for downloading all databases

Changed

all databases except COSMIC are now versioned in fusion-report-db

Fixed

Issues with downloading too many stuff (#28)

2.0.2

Changed

moved from Travis to Github Actions

Fixed

tool_cutoff was not casted to int (#25)
csv export missing data (#26)
better exception handling for downloading databases

2.0.1

Fixed

Fixed missing Mitelman database file

2.0.0

This version of fusion-report has been completely rebuild from scratch following best python practices as well as typing.

Added

Implemented Illumina Dragon by @chadisaad
Implemented Arriba (#4)
Export fusion list into multiple formats (#16)
Version parameter (#10)

Changed

Switched docs to docsify
Slack invite link (#20)
Renamed fusion_genes_mqc.json to fusions_mqc.json (#9)

Fixed

Check if input file exists and is not empty (#13)

1.0.0 - 2019-03-26