Thank you for creating this great tool !
I had a slight issues running the tool on a FASTA file containing 3164 contigs
phages_combined_fna.fasta.zip
python CL_Interface.py -i phages_combined_fna.fasta -n 8 > output.txt
The tool behaved as expected for most contigs in the file, with output file showing the contig name and match (if there was one) on separate lines.
However, the output file was missing values for 29/3164 contigs in the fasta file
29contigs_subset.zip
I ran those 29 contigs separately and the output.txt only gave a single line "No hits found. Sorry". When I ran the tool on all 3164 contigs, it would indicate on separate lines for each contig when no hits were found. Since only one line was output when running these 29 contigs, I was wondering if you have any idea whether there was a problem running these contigs or whether there was indeed no hits to these contigs.
Thank you !
Thank you for creating this great tool !
I had a slight issues running the tool on a FASTA file containing 3164 contigs
phages_combined_fna.fasta.zip
python CL_Interface.py -i phages_combined_fna.fasta -n 8 > output.txt
The tool behaved as expected for most contigs in the file, with output file showing the contig name and match (if there was one) on separate lines.
However, the output file was missing values for 29/3164 contigs in the fasta file
29contigs_subset.zip
I ran those 29 contigs separately and the output.txt only gave a single line "No hits found. Sorry". When I ran the tool on all 3164 contigs, it would indicate on separate lines for each contig when no hits were found. Since only one line was output when running these 29 contigs, I was wondering if you have any idea whether there was a problem running these contigs or whether there was indeed no hits to these contigs.
Thank you !