bioblend-test

This repo demonstrates how to access the Naturalis galaxy portal from python using bioblend. There are the following files:

• client.py - a script that runs a constrained ML search using RAxML
• raxml-ready.fa - aligned COI-5P sequences in FASTA format
• raxml-ready.tre - input constraint tree that partially covers the alignment taxa
• output_tree.nxh - the ML tree that results from the analysis
• inputs.json - the inputs for the RAxML tool as JSON, obtained from the GalaxyInstance
• outputs.json - the outputs produced by the tool as JSON, obtained from the GalaxyInstance
• requirements.txt - the required packages, i.e. bioblend and requests