Question: Prokka error message
0
gravatar for a.mostafa5050
12 days ago by
a.mostafa50500 wrote:

Hi everybody, I am trying to run Prokka but the following error message appears:

Could not run command: makeblastdb -hash_index -dbtype prot -in \/cluster\/software\/prokka\/1\.13\.7\-gompi\-2019a\/db\/kingdom\/Archaea\/sprot -logfile /dev/null

Here is my SLURM script:

module load prokka/1.13.7-gompi-2019a
prokka --setupdb -i /cluster/work/users/ahmedbar/191129_M01132.Project_Petersen-DNAlibs2-2019-11-06/Contigs_and_scafolds_2/contigs_F-1year-Amox_S15.fasta -o /cluster/work/users/ahmedbar/191129_M01132.Project_Petersen-DNAlibs2-2019-11-06/CD_HIT_output

Thanks

alignment software error • 86 views
ADD COMMENTlink modified 12 days ago by Mensur Dlakic7.3k • written 12 days ago by a.mostafa50500
0
gravatar for Mensur Dlakic
12 days ago by
Mensur Dlakic7.3k
USA
Mensur Dlakic7.3k wrote:

Probably just need to remove --setupdb from your command. That switch is used to parse and process all prokka databases. Chances are you didn't mean to do that, and you likely can't write in prokka database folder anyway.

ADD COMMENTlink written 12 days ago by Mensur Dlakic7.3k
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