Command line: /oak/stanford/groups/akundaje/marinovg/programs/SPAdes-3.13.0-Linux/bin/spades.py	--pe1-1	/srv/scratch/marinovg/L1152-L1147-Euplotes_sym_gDNA-reamp.191111_NB551514_0319_AHFY5NBGXC.read1.paired.fastq.gz	--pe1-2	/srv/scratch/marinovg/L1152-L1147-Euplotes_sym_gDNA-reamp.191111_NB551514_0319_AHFY5NBGXC.read2.paired.fastq.gz	--s1	/srv/scratch/marinovg/L1152-L1147-Euplotes_sym_gDNA-reamp.191111_NB551514_0319_AHFY5NBGXC.read1.unpaired.fastq.gz	--s2	/srv/scratch/marinovg/L1152-L1147-Euplotes_sym_gDNA-reamp.191111_NB551514_0319_AHFY5NBGXC.read2.unpaired.fastq.gz	-t	40	-o	/srv/scratch/marinovg/SPAdes-3.13-L1152-L1147-Euplotes_sym_gDNA-reamp	

System information:
  SPAdes version: 3.13.0
  Python version: 2.7.12
  OS: Linux-4.4.0-165-generic-x86_64-with-Ubuntu-16.04-xenial

Output dir: /srv/scratch/marinovg/SPAdes-3.13-L1152-L1147-Euplotes_sym_gDNA-reamp
Mode: read error correction and assembling
Debug mode is turned OFF

Dataset parameters:
  Multi-cell mode (you should set '--sc' flag if input data was obtained with MDA (single-cell) technology or --meta flag if processing metagenomic dataset)
  Reads:
    Library number: 1, library type: paired-end
      orientation: fr
      left reads: ['/srv/scratch/marinovg/L1152-L1147-Euplotes_sym_gDNA-reamp.191111_NB551514_0319_AHFY5NBGXC.read1.paired.fastq.gz']
      right reads: ['/srv/scratch/marinovg/L1152-L1147-Euplotes_sym_gDNA-reamp.191111_NB551514_0319_AHFY5NBGXC.read2.paired.fastq.gz']
      interlaced reads: not specified
      single reads: not specified
      merged reads: not specified
    Library number: 2, library type: single
      left reads: not specified
      right reads: not specified
      interlaced reads: not specified
      single reads: ['/srv/scratch/marinovg/L1152-L1147-Euplotes_sym_gDNA-reamp.191111_NB551514_0319_AHFY5NBGXC.read1.unpaired.fastq.gz']
      merged reads: not specified
    Library number: 3, library type: single
      left reads: not specified
      right reads: not specified
      interlaced reads: not specified
      single reads: ['/srv/scratch/marinovg/L1152-L1147-Euplotes_sym_gDNA-reamp.191111_NB551514_0319_AHFY5NBGXC.read2.unpaired.fastq.gz']
      merged reads: not specified
Read error correction parameters:
  Iterations: 1
  PHRED offset will be auto-detected
  Corrected reads will be compressed
Assembly parameters:
  k: automatic selection based on read length
  Repeat resolution is enabled
  Mismatch careful mode is turned OFF
  MismatchCorrector will be SKIPPED
  Coverage cutoff is turned OFF
Other parameters:
  Dir for temp files: /srv/scratch/marinovg/SPAdes-3.13-L1152-L1147-Euplotes_sym_gDNA-reamp/tmp
  Threads: 40
  Memory limit (in Gb): 250