Oread 1.3

A commandline and GUI tool for the creation of Artemis/Artemis Comparison Tool files.

# Oread _/ˈɔːrɪad/_

A commandline and GUI tool for the creation of Artemis/Artemis Comparison Tool files.

# Installation Presently, this package has a number of dependencies:

• Install a miniconda distribution (or anything that allows access to a pythonw binary but miniconda is recommended (later this tool may be installable via conda)

• Install biopython (very easy via conda with $ conda install -c bioconda biopython)

• Ensure you have the BLAST+ suite installed (NOT legacy BLAST). Also very easy via conda: $ conda install -c bioconda blast

• Finally, the GUI depends on the non-standard module Gooey. Install it via conda with: $conda install -c krrishnarraj gooey or via pip with pythonw -m pip install gooey

# Running So far this has only been tested on MacOS. For this, a “framework” version of python is needed. This can be installed via conda which is strongly recommended, and then the script run with the pythonw binary:

$ pythonw Artemisia.py

This will open the window. If you set the Artemisia.py script to be executable (it should already be) and to open with Terminal by default (select the file, Command+I, then alter the defaults), you can launch with a double click.

The program can also be run from the commandline by providing the –ignore-gooey option to disable the GUI.

$ python Oread.py –ignore-gooey <…options…>