oschwengers / referenceseeker

Rapid determination of appropriate reference genomes.
https://doi.org/10.21105/joss.01994
GNU General Public License v3.0
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GTDB last update #29

Open GuilhemRoyer opened 3 months ago

GuilhemRoyer commented 3 months ago

Hi Oliver,

Thank you for this nice tool. Have you found a way to share the latest GTDB update? I'll be highlyinterested to get the last version.

Thanks,

oschwengers commented 3 months ago

Hi @GuilhemRoyer , thanks for asking. I'll update the GTDB bacteria DB to v220 and provide a download link, soon - hopefully by the end of this week.

GuilhemRoyer commented 3 months ago

Thank you for your prompt reply!

oschwengers commented 3 months ago

OK, I've compiled the GTDB bacteria section based on the most recent v220. However, it's 106 GB in size and too large for Zenodo. So, I have to find a way to share this. Meanwhile, any idea/way how to share this?

GuilhemRoyer commented 3 months ago

Thanks Oliver. I can send you a link to upload the data, but the size limit is 100 Gb... Perhaps it's possible to divide the files into two sets?

Let me know if this works for you and if it doesn't take up too much of your time.

oschwengers commented 3 months ago

I'm very sorry, but won't find time to split these files (I hardly found time to recompile the db for GTDB) before vacation this week - Im very sorry. If you find a solution I happily try to upload it but currently I have to finish some other things. If there's no easy transfer solution, we can look at at the end of Aug, again?

GuilhemRoyer commented 3 months ago

Dear Oliver,

Many thanks for you reply! I've emailed you a link where you can upload the whole GTDB update. Don't hesitate if you have any problems.