I was trying to run abyss 2.2.4 and I came across an issue. The loop includes running 5 kmers on 20 samples. The code used is as follows:
abyss-pe name='name' k='kmervalue' in = 'file1_r1.fq file1_r2.fq'
My loop is running fine and execute all 100 samples. But for 5 samples in between [not the extreme kmers or extreme samples in the list given to loop], some output files are not generated. I was wondering if I need to specify the thread parameter for abyss?