rapt
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ncbi
Read Assembly and Annotation Pipeline Tool
Hi, there, I am wondering if we can run rapt with annotation only, for example, we have assembly sequence, and want to do the annotation only. Thanks. George
Hello, I assembled a genome with SPAdes --> checkM. CheckM showed it as Rhizobiales with 99.6% completeness. But ANI identified it as Altermonas. I thought of trying RAPT in one...
This might be a little stupid question. But i have a question about the ANI report, and i cant seem to find a description anywhere. In the output (see the...
I got this error when I ran RAPT on paired end illumina fastq files. **Error: skesa failed with code -9 [2022-07-08 20:56:34] Sending PINGER url https://www.ncbi.nlm.nih.gov/stat?ncbi_app=raptdocker&version=2022-04-14.build6021&uuid=3b0d8616-ff00-11ec-810c-501fc65b9c25&evt=skesa_failed&rcode=-9 [2022-07-08 20:56:34] Usage metrics...
In ticket #10 there is a reference to running rapt in offline mode. We also have a need to do this. I've managed to modify the python script so it...
I have a docker installed and whenever I run the code "python3 ./run_rapt.py --test" I get an error that says "docker: Error response from daemon: manifest for ncbi/rapt:v0.3.0 not found:...
When I run RAPT, by the following command: ./run_rapt.py -a SRS10489852 I got the error in verbose.log: Found input: SRA run accession SRS10489852 Reference data presents and is intact, skip...
Dear RAPT developers, The documentation explicitly says that RAPT handles bacterial or archaeal reads, but I wonder whether fungi reads (even being from eukaryotic) can be processed also. Thank yout...
Hi all, I'm trying to run RAPT on a HPC system running CentOS8 with singularity version 3.5.3 (Docker is not an option for me). I'm able to run the first...
> Thanks for contacting us with your error log, sorry you've again encountered a problem with this. > > I see in NCBI's web logs that your first step (whose...