Sorry if that's a dumb question, but I would like to understand how Abyss look for the files whose paths I've included after "in=".
$abyss-pe -C out j=12 name=nana k=46 in='temp/test_r1.fq.gz temp/test_r2.fq.gz'
Returns the error:
error: `temp/test_r1.fq.gz': No such file or directory
However, typing the full path returns no error and the assembly runs smootly.
$abyss-pe -C out j=12 name=nana k=46 in='/home/some_path_to/temp/test_r1.fq.gz /home/some_path_to/temp/test_r2.fq.gz'
I am running Abyss 2.0.3 in a bash shell.