Eric Tvedte
Eric Tvedte
Hello, The addition of lcl| is specific to the FCS-adaptor behavior when accessing the cleaned_sequences directory. We can consider implementing this in an upcoming release. In the meantime, use `sed`....
No, `fcs.py` is a wrapper to run the executables inside Docker/Singularity containers. If you need to set up using Singularity, follow the instructions here to get the runner, singularity image,...
We have an updated wiki that demonstrates how to clean a genome with FCS-adaptor style output: https://github.com/ncbi/fcs/wiki/FCS-adaptor-quickstart#clean-the-genome
`AssertionError: Integrity check failed.` This error indicates that the database files copied to the destination directory are corrupted. What did you do for batch processing in #78 ? Please verify...
Did you manage to resolve this issue? The various db retrieval methods are described here: https://github.com/ncbi/fcs/wiki/FCS-GX-input#fcs-gx-database-location
Thanks. Hope things continue to run smoothly. I know you have another open reported issue so let me know if you get the latest release to run.
Can I ask what context you are working with sequences
Point taken. We will consider this for our next release.
The job summary shows correct statistics. Although GX memory-maps the large `.gxi` and `.gxs` files which are required to be in physical memory to avoid thrashing (major page-faults), any particular...
We are not sure exactly how to interpret the discrepancy that LSF is showing. It is possible that this is measuring the RAM used by the python runner script and...