fastqp stuck with very long consensus fastq file
peterdfields opened this issue · comments
I'm trying to generate a plot of fastq quality along a very long (800kb) assembly sequence. When I run fastqp I get the following and seemingly no non-stdout output:
At 1775681 bytes per read of 887828 length we estimate 1 reads in input file.
Bin size (-s) set to 1.
It might be the case that this is simply not the appropriate tool. The goal is simply a summary of support of given nucleotide calls along the de novo reference. All advice is much appreciated!
Yes, @peterdfields, I believe this is the wrong tool for your task. If there is only one sequence in the input file, fastqp will likely error when calculating base quality quantiles.
Makes sense. Thanks for your reply!