what files are okay to delete from taxonomy/?

[Drishti Kaul]

Hi Rachid,

I was trying to delete a couple of files from the *taxonomy*/ directory post analysis, after the desired database (Bacteria in the example below) is created, and I was wondering if I could remove nucl_accss, nucl_gb.accession2taxid, and nucl_wgs.accession2taxid? These files take up a lot of the memory and it seems like the important files required for the downstream abundance estimation (names.dmp/nodes.dmp among others) are already saved and zipped at taxdump.tar.gz. 

So, is it okay to remove everything else but the taxdump.tar.gz folder? I couldn't find that information in the readme and I tried looking at a couple of the bash scripts too and couldn't find any instances of any other files in taxonomy/ other than names.dmp and nodes.dmp, so I just wanted to make sure I inquired before deleting something that would be important for reproducing the results in the future.

-bash-4.1$ ls db

Bacteria  bacteria_0  files_excluded.txt  targets.txt  taxonomy

-bash-4.1$ ls db/taxonomy/

citations.dmp  delnodes.dmp  division.dmp  gc.prt  gencode.dmp  merged.dmp  names.dmp  nodes.dmp  nucl_accss  nucl_gb.accession2taxid  nucl_wgs.accession2taxid  readme.txt  taxdump.tar.gz

Thanks,

Drishti 

[Rachid]

You will need taxdump.tar.gz, as well as nucl_accss.

[Drishti Kaul]

So its okay to delete the rest then, everything apart from the zipped taxdump and nucl_accss?