| am doing two nullarbor runs using E. coli references I downloaded from GenBank. Both are giving a similar error.
Here’s the first,
Invalid --reference filename
Makefile:33: recipe for target ‘580-2/580-2/snps.tab’ failed
make: *** [580-2/580-2/snps.tab] Error 2
And for the second,
*** No rule to make target ‘/home/ubuntu/efn/concat_reads/trimmed_reads/gff_files_for_good_cov_genomes/E_coli_Sakai_ref.fasta’, needed by ‘ref.fa’. Stop.
make: Leaving directory ‘/home/ubuntu/efn/concat_reads/nullarbor_ST315_20Apr2018’
Are my references the issue please?
Grateful for your kind assistance,