You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
colabfold_search executes for 10 sequences on the hours timescale
Current Behavior
colabfold_search for 10 sequences essentially hangs on expandaln (very slow progress bar, it will take 24 hours at this rate)
Note I am running it with 40 threads
Steps to Reproduce (for bugs)
I setup the databases locally without and index.
I had originally tried doing it with an index and db-load-mode 0 since I have NVMe storage. This completely hangs on the first prefiltering step and makes no progress. I thought maybe it had to do with limitations of the node I am on on my HPC cluster (104 cores, 200 GB)
I only have access to nodes with a max of 750 GB RAM, so I don't think in memory index is an option
Is this speed expected given I am indexing on the fly? If not, how can I optimize the speed without in memory index?
Thanks for your time and work.
The text was updated successfully, but these errors were encountered:
Expected Behavior
colabfold_search
executes for 10 sequences on the hours timescaleCurrent Behavior
colabfold_search
for 10 sequences essentially hangs onexpandaln
(very slow progress bar, it will take 24 hours at this rate)Note I am running it with 40 threads
Steps to Reproduce (for bugs)
I setup the databases locally without and index.
I had originally tried doing it with an index and db-load-mode 0 since I have NVMe storage. This completely hangs on the first prefiltering step and makes no progress. I thought maybe it had to do with limitations of the node I am on on my HPC cluster (104 cores, 200 GB)
I only have access to nodes with a max of 750 GB RAM, so I don't think in memory index is an option
Is this speed expected given I am indexing on the fly? If not, how can I optimize the speed without in memory index?
Thanks for your time and work.
The text was updated successfully, but these errors were encountered: