python /N/dc2/projects/marinovg/programs/SPAdes-3.5.0-Linux/bin/spades.py --pe1-1 /N/dc2/projects/paramecium/RAW_DATA/Paramecium/pentaurelia/strain_870/TS/raw_reads/130302_M00532_0028_LynchDoak527-TS22.R1.fastq.gz --pe1-2 /N/dc2/projects/paramecium/RAW_DATA/Paramecium/pentaurelia/strain_870/TS/raw_reads/130302_M00532_0028_LynchDoak527-TS22.R2.fastq.gz --pe2-1 /N/dc2/projects/paramecium/RAW_DATA/Paramecium/pentaurelia/strain_870/TS/raw_reads/130302_M00532_0028_LynchDoak527-TS27.R1.fastq.gz --pe2-2 /N/dc2/projects/paramecium/RAW_DATA/Paramecium/pentaurelia/strain_870/TS/raw_reads/130302_M00532_0028_LynchDoak527-TS27.R2.fastq.gz --pe3-1 /N/dc2/projects/paramecium/RAW_DATA/Paramecium/pentaurelia/strain_870/TS/raw_reads/130302_M00532_0028_LynchDoak527-TS3.R1.fastq.gz --pe3-2 /N/dc2/projects/paramecium/RAW_DATA/Paramecium/pentaurelia/strain_870/TS/raw_reads/130302_M00532_0028_LynchDoak527-TS3.R2.fastq.gz --pe4-1 /N/dc2/projects/paramecium/RAW_DATA/Paramecium/pentaurelia/strain_870/TS/raw_reads/130302_M00532_0028_LynchDoak527-TS9.R1.fastq.gz --pe4-2 /N/dc2/projects/paramecium/RAW_DATA/Paramecium/pentaurelia/strain_870/TS/raw_reads/130302_M00532_0028_LynchDoak527-TS9.R2.fastq.gz --mp1-1 /N/dc2/projects/paramecium/RAW_DATA/Paramecium/pentaurelia/strain_870/MP/raw_reads/MP.R1.fastq.gz --mp1-2 /N/dc2/projects/paramecium/RAW_DATA/Paramecium/pentaurelia/strain_870/MP/raw_reads/MP.R2.fastq.gz -t 32 -o /N/dc2/projects/marinovg/2015-01-29-P-assem/Paramecium_pentaurelia_strain_870-SPAdes-3.5.0
python /N/dc2/projects/marinovg/programs/SPAdes-3.5.0-Linux/bin/spades.py --mp1-1 /N/dc2/projects/paramecium/RAW_DATA/Paramecium/pentaurelia/strain_87E/553MP/raw_reads/130405_M01529_0005_Lynch553MP.R1.fastq.gz --mp1-2 /N/dc2/projects/paramecium/RAW_DATA/Paramecium/pentaurelia/strain_87E/553MP/raw_reads/130405_M01529_0005_Lynch553MP.R2.fastq.gz --pe1-1 /N/dc2/projects/paramecium/RAW_DATA/Paramecium/pentaurelia/strain_87E/553short/raw_reads/130405_M01529_0005_Lynch553short.R1.fastq.gz --pe1-2 /N/dc2/projects/paramecium/RAW_DATA/Paramecium/pentaurelia/strain_87E/553short/raw_reads/130405_M01529_0005_Lynch553short.R2.fastq.gz -t 32 -o /N/dc2/projects/marinovg/2015-01-29-P-assem/Paramecium_pentaurelia_strain_87E-SPAdes-3.5.0