Setup

Seen with latest code from git while preparing the 1.73 release on Linux, but applies to all platforms.

Expected behaviour

$ python run_tests.py test_PDB_StructureAlignment.py
Python version: 2.7.15 | packaged by conda-forge | (default, Jul 27 2018, 10:26:36) 
[GCC 4.8.2 20140120 (Red Hat 4.8.2-15)]
Operating system: posix linux2
test_PDB_StructureAlignment ... ok

Hey,

I would propose extend list of available models by SeqVec (ELMo-based implementation) which was presented in the Modeling aspects of the language of life through transfer-learning protein sequences paper.

SeqVec model trained on UniRef50 is available at: [SeqVec-model](

This issue is a roadmap for Molly.jl development. Feel free to discuss things here or submit a PR. Bear in mind that significant refactoring will probably occur as the package develops.

Low hanging fruit

Want to get involved? These issues might be the place to start:

• Speedups to the code. Both on the level of individual functions and the overall algorithm. [Getting there]
• Look over

Actual test coverage is ~89%. That's great! However, would be great to increase that number to make this package more reliable and avoid future regressions ;)

It's easy to see what lines are missing tests using codecov and coveralls.

We need to find a way to test `MIToS