Gaurav Agarwal

The script runs for a while and generates an empty output file (soft_core_seq.fa) with out generating any error. Can anyone please suggest what wrong could I be doing here?

I observed that a temp directory by the name ---> 3lgukFplvj was made in which all the proteome.faa files were written. However, when the query_pan_genome script got over the above...

No, it is not possible! The temp that it is generating contains the protein sequences corresponding to those ids. But temp file exists as long as the script runs and...

Thank you Tseemann for your response. I tried with -o option as well as shown below but result is still the same. /usr/local/apps/eb/Roary/3.12.0/bin/query_pan_genome -a gene_multifasta -o softcore_seq.fa -n ..... *.gff...

query_pan_genome -a gene_multifasta is fetching the entire proteomes for respective strains with file extension name as annot.gff.proteome.faa in temp folder. I copied the files from temp folder and looked in...

Tried with one gene as following: /usr/local/apps/eb/Roary/3.12.0/bin/query_pan_genome -a gene_multifasta -o sof_cor_gen_fa -n fhuE *.gff No output file is resulted.

Sorry for my delayed response. Tried with one gene as following: /usr/local/apps/eb/Roary/3.12.0/bin/query_pan_genome -a gene_multifasta -o sof_cor_gen_fa -n fhuE *.gff No output file is resulted. No error message. Gaurav On Tue,...

If needed I can share my files.