metaSPAdes 3.13.0 assembly of the CAMI 2 Mouse Gut Toy data set, samples 0-9, short reads

Assembly of the first 10 short read samples
Software: metaSPAdes
SoftwareVersion: 3.13.0
DataURL: https://data.cami-challenge.org/participate
SoftwareURL: https://github.com/ablab/spades
ShortReadsUsed: True
LongReadsUsed: False
CommandUsed: conda create -n spades3130 spades=3.13.0-0

Sample0=/path/to/19122017_mousegut_scaffolds/2017.12.29_11.37.26_sample_0/reads/anonymous_reads.fq.gz
Sample1=/path/to/19122017_mousegut_scaffolds/2017.12.29_11.37.26_sample_1/reads/anonymous_reads.fq.gz
Sample2=/path/to/19122017_mousegut_scaffolds/2017.12.29_11.37.26_sample_2/reads/anonymous_reads.fq.gz
Sample3=/path/to/19122017_mousegut_scaffolds/2017.12.29_11.37.26_sample_3/reads/anonymous_reads.fq.gz
Sample4=/path/to/19122017_mousegut_scaffolds/2017.12.29_11.37.26_sample_4/reads/anonymous_reads.fq.gz
Sample5=/path/to/19122017_mousegut_scaffolds/2017.12.29_11.37.26_sample_5/reads/anonymous_reads.fq.gz
Sample6=/path/to/19122017_mousegut_scaffolds/2017.12.29_11.37.26_sample_6/reads/anonymous_reads.fq.gz
Sample7=/path/to/19122017_mousegut_scaffolds/2017.12.29_11.37.26_sample_7/reads/anonymous_reads.fq.gz
Sample8=/path/to/19122017_mousegut_scaffolds/2017.12.29_11.37.26_sample_8/reads/anonymous_reads.fq.gz
Sample9=/path/to/19122017_mousegut_scaffolds/2017.12.29_11.37.26_sample_9/reads/anonymous_reads.fq.gz

cat $Sample0 $Sample1 $Sample2 $Sample3 $Sample4 $Sample5 $Sample6 $Sample7 $Sample8 $Sample9 > Samples0-9_anonymous_reads.fq.gz

conda activate spades3130
/usr/bin/time -v metaspades.py --12 Samples0-9_anonymous_reads.fq.gz -o metaSPAdes3130-Sample0-9