I’m running MIRA 4.9.5_2 on a collection of metagenomic datasets. Nothing super
large.
I have it set to 4 passes which is the setting I have been using for some time.
The first 3 passes appear to run alright. I get the number of contigs I expect
and they are about right for length.
Pass number 4 - the final one - is strange. It takes a very long time to
complete and on top of that, the contigs are tiny compared to the ones I get
from Pass number 3. Around 10% as long which I think is really odd. It took me
a bit to realize it.
Attached is a copy of a manifest file. Has anyone else noticed similar behavior?
Thanks, Torben
project = X
job = genome,denovo,accurate
parameters = -SK:mchr=32768 \
-NW:cmrnl=no:cac=warn \
-AS:nop=4:sd=yes \
SOLEXA_SETTINGS -CL:pec=yes:spx174=yes:fpx174=yes:qc=yes
readgroup = X
autopairing
data = X.fastq
technology = solexa
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