Jon Palmer

Yes this problem is very annoying. It's unclear what the issue with conda is, perhaps some dependency is missing I'm not sure. When I manually compile v3.4 it seems to...

So once you have a working environment you should mostly be able to just upgrade funannotate with pip in that environment. I have love/hate view if conda as well....

This is still a problem on OS X only. So here is the short term fix until the Augustus developers can fix the code and/or somebody smarter than me can...

Note, if you have a more recent version of GCC installed, i.e. gcc6, then you can modify this distribution as such to configure for gcc-6. ``` #move into augustus folder...

Did the above installation of v3.2.1 work by chance? I have not tried the newest version (v3.2.3) yet so I don't know if it will compile on Mac or not.

Yes, the home-brew installation appears to install correctly, but protein profile is broken. I've opened several tickets with Augustus developers and have never gotten a response.... hopefully my hack solution...

Great! Best of luck, let me know if you run into any problems or something isn't clear.

Hi @sarah872. There still isn't an easy solution for this. I have never been able to get any help from Augustus developers, thus here is what I know currently as...

Hi @sarah872. You can give this a try, let me know if it works: https://github.com/nextgenusfs/augustus

It can't find the include folder from bamtools, where did you install bamtools?