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BenoitMorel / ParGenes

A massively parallel tool for model selection and tree inference on thousands of genes
GNU General Public License v3.0
42 stars 6 forks source link

Tags for newer versions #61

Closed tardigradus closed 4 years ago

tardigradus commented 5 years ago

Would it be possible to create release tags for newer versions than 1.0.1?

BenoitMorel commented 5 years ago

Hi Tardigradus,

Yes, sure. I will do that this week, after upgrading the last version of raxml-ng and answering a few requests.

Benoit

tardigradus commented 5 years ago

OK, thanks!

Apropos RAxML-NG, have you considered unbundling ParGenes from its dependencies? For instance, on our university HPC system we already have RAxML installed separately and can update it ourselves when a new version comes out. I understand that you want to make your software easier to use for individual users, but for administrator such bundling of software can make life more complicated. Perhaps it could be an install option, whether the bundled subprojects should be used or not.

BenoitMorel commented 5 years ago

I completely understand this installation/dependencies nightmare :-) One issue is that for pargenes-mpi.py (instead of pargenes.py), we use a custom raxml-ng build: we build raxml-ng as a dynamic library, and not as an executable. Thus you would either need to additionally install raxml-ng as a library on your cluster (there is one more cmake flag to add for that), or to use pargenes.py only. But I can definitively add an option to specify your own raxml-ng command, and document the limitations I just described. If you still want it, can you open a separate issue?

BenoitMorel commented 4 years ago

I am closing this issue, since this conversation was moved to https://github.com/amkozlov/raxml-ng/issues/91