Hello all,
I am trying to make an alignment using Bowtie2 on the following contigs data: http://www.ncbi.nlm.nih.gov/Traces/w...ACGE01#contigs
I downloaded the file that is in the .fsa_nt format, since I thought I could use fasta formats as an input for Bowtie2 using the following command:
$ bowtie2 -f -x agaA -U ACGE01.1.fsa_nt -S ACGE01.sam
However, I keep getting the same error no matter what I do:
Warning: Could not open read file "/ACGE01.1.fsa" for reading; skipping...
Error: No input read files were valid
(ERR): bowtie2-align exited with value 1
Has anyone else run into a similar problem or have any advice on what I can do instead?
Any help will be very appreciated!
Thanks!
I am trying to make an alignment using Bowtie2 on the following contigs data: http://www.ncbi.nlm.nih.gov/Traces/w...ACGE01#contigs
I downloaded the file that is in the .fsa_nt format, since I thought I could use fasta formats as an input for Bowtie2 using the following command:
$ bowtie2 -f -x agaA -U ACGE01.1.fsa_nt -S ACGE01.sam
However, I keep getting the same error no matter what I do:
Warning: Could not open read file "/ACGE01.1.fsa" for reading; skipping...
Error: No input read files were valid
(ERR): bowtie2-align exited with value 1
Has anyone else run into a similar problem or have any advice on what I can do instead?
Any help will be very appreciated!
Thanks!
Comment