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I tested Galah on a small and on a large dataset. In both, I get
[2022-09-14T07:35:31Z INFO galah::dashing] Running dashing to get approximate distances .. [2022-09-14T07:35:31Z ERROR bird_tool_utils::command] Error when running dashing process. Exitstatus was : ExitStatus(unix_wait_status(4)) [2022-09-14T07:35:31Z ERROR bird_tool_utils::command] The STDERR was: "Dashing version: v0.4.0\n" [2022-09-14T07:35:31Z ERROR bird_tool_utils::command] The STDOUT was: "" [2022-09-14T07:35:31Z ERROR bird_tool_utils::command] Cannot continue after dashing failed.
I can use the finch method as a work around.
I installled galah with conda Here is my full command.
galah cluster --genome-fasta-directory genomes/all_bins --genome-fasta-extension fasta --genome-info genomes/quality.csv --ani 97.5 --min-aligned-fraction 0.5 --min-completeness 50 --max-contamination 10 --quality-formula Parks2020_reduced --threads 8 --output-representative-fasta-directory genomes/dereplicated_genomes --output-cluster-definition genomes/clustering/allbins2genome_oldname.tsv
The text was updated successfully, but these errors were encountered:
Hi,
I think this is likely due to a compilation issue with dashing - does running it outside of galah work?
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I tested Galah on a small and on a large dataset. In both, I get
I can use the finch method as a work around.
I installled galah with conda
Here is my full command.
The text was updated successfully, but these errors were encountered: