scanfoldigvpatch

Patched version of IGV that integrates ScanFold functionality.

Requirements

• python3
• jdk 11 (newer may work, haven't tested)

on fedora (not needed on mac)

sudo dnf install git zip patch java-11-openjdk.x86_64 gcc g++ python3-devel zlib-devel tar make

Compile

Build IGV (CI currently only does this)

1. clone this repository recursively (git clone --recursive https://github.com/rjandr/scanfoldigv)
2. ./scripts/apply_patch.sh
3. ./scripts/build_igv.sh

Build ScanFold and dependencies

1. ./scripts/build_scanfold_env.sh
2. ./scripts/build_viennarna.sh
   this will fail at src/Kinfold, but that's fine
3. ./scripts/build_rnastructure.sh

Run

1. ./scripts/run_igv.sh