Comments (2)
Hello @alexlevylab , I tried to reproduce the error but everything worked fine as expected. Also, the latest db file hosted on Zenodo does contain the oriT
blast databases.
Could you please check again, that platon version v1.6
is installed and version v1.5.0
of the database is downloaded and in place?
I checked it via this set of commands:
conda create -p conda-test -c conda-forge -c bioconda platon=1.6
conda activate conda-test
platon --version
wget https://zenodo.org/record/4066768/files/db.tar.gz
tar -xvzf db.tar.gz
platon --db db/ -v <an-arbitrary-test-draft-assembly>
Best regards
from platon.
I was able to run it with conda, I must have made a mistake with the download of the db.
Thank you for your help!
from platon.
Related Issues (20)
- Blast contig results HOT 7
- Permission denied: 'prodigal' HOT 1
- The number of contigs in plasmid.fasta is not the same as the number of contigs in .tsv HOT 3
- Differences between .log and plasmid.fasta file HOT 3
- --meta missing HOT 2
- RDS is always 0.0 HOT 7
- Trouble testing on chromosomes HOT 9
- Platon report Mobilization and Conjugation HOT 2
- IndexError: list index out of range error HOT 1
- genome fasta file UNRECOGNIZED HOT 5
- Where can we find version of the RefSeq plasmid database used? HOT 1
- Strange output - is it normal? HOT 2
- Any plans for enabling user to use custom database like COMPASS HOT 1
- Option to see the 'hits' in the results HOT 1
- execution problem HOT 3
- diamond version HOT 2
- Error: No module named 'platon.platon' As #21
- Marker protein search failed! and ERROR - MAIN - diamond execution failed! diamond-error-code=-11 HOT 3
- "Marker protein search failed!" error after execution HOT 9
- Platon for long-read contigs? HOT 2
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from platon.