working on soapdenovo but having run the analysis for more than 60hrs. Still not able to get any result from the analysis. Have 5 pair reads making up 10 fastq files. Below is the details of my config file. Please kindly help out to check if there are things that am not getting right.#maximal read length
max_rd_len=201
[LIB]
#average insert size
avg_ins=300
#if sequence needs to be reversed
reverse_seq=0
#in which part(s) the reads are used
asm_flags=3
#use only first 100 bps of each read
rd_len_cutoff=100
#in which order the reads are used while scaffolding
rank=1
# cutoff of pair number for a reliable connection (at least 3 for short insert size)
pair_num_cutoff=3
#minimum aligned length to contigs for a reliable read location (at least 32 for short insert size)
map_len=32
#a pair of fastq file, read 1 file should always be followed by read 2 file
q1=/syn02iscsi/agisel/Cassava/Ismail/WGS/raw_data/3422_7332_10694_H9WVUADXX_I961089A_CTTGTA_R1.fastq.gz
q2=/syn02iscsi/agisel/Cassava/Ismail/WGS/raw_data/3422_7332_10694_H9WVUADXX_I961089A_CTTGTA_R2.fastq.gz
#another pair of fastq file, read 1 file should always be followed by read 2 file
q1=/syn02iscsi/agisel/Cassava/Ismail/WGS/raw_data/3422_7332_10694_HA63NADXX_I961089A_CTTGTA_R1.fastq.gz
q2=/syn02iscsi/agisel/Cassava/Ismail/WGS/raw_data/3422_7332_10694_HA63NADXX_I961089A_CTTGTA_R2.fastq.gz
#a pair of fasta file, read 1 file should always be followed by read 2 file
[LIB]
avg_ins=500
reverse_seq=o
asm_flags=3
rank=2
# cutoff of pair number for a reliable connection (at least 5 for large insert size)
pair_num_cutoff=5
#minimum aligned length to contigs for a reliable read location (at least 35 for large insert size)
map_len=35
q1=/syn02iscsi/agisel/Cassava/Ismail/WGS/raw_data/3423_7332_10706_H9WVUADXX_I961089A_500_ATTCCT_R1.fastq.gz
q2=/syn02iscsi/agisel/Cassava/Ismail/WGS/raw_data/3423_7332_10706_H9WVUADXX_I961089A_500_ATTCCT_R2.fastq.gz
#a pair of fastq file, read 1 file should always be followed by read 2 file
q1=/syn02iscsi/agisel/Cassava/Ismail/WGS/raw_data/3423_7332_10706_HA63NADXX_I961089A_500_ATTCCT_R1.fastq.gz
q2=/syn02iscsi/agisel/Cassava/Ismail/WGS/raw_data/3423_7332_10706_HA63NADXX_I961089A_500_ATTCCT_R2.fastq.gz
#a pair of fastq file, read 1 file should always be followed by read 2 file
q1=/syn02iscsi/agisel/Cassava/Ismail/WGS/raw_data/3423_7332_10706_HAK9RADXX_I961089A_500_ATTCCT_R1.fastq.gz
q2=/syn02iscsi/agisel/Cassava/Ismail/WGS/raw_data/3423_7332_10706_HAK9RADXX_I961089A_500_ATTCCT_R2.fastq.gz
max_rd_len=201
[LIB]
#average insert size
avg_ins=300
#if sequence needs to be reversed
reverse_seq=0
#in which part(s) the reads are used
asm_flags=3
#use only first 100 bps of each read
rd_len_cutoff=100
#in which order the reads are used while scaffolding
rank=1
# cutoff of pair number for a reliable connection (at least 3 for short insert size)
pair_num_cutoff=3
#minimum aligned length to contigs for a reliable read location (at least 32 for short insert size)
map_len=32
#a pair of fastq file, read 1 file should always be followed by read 2 file
q1=/syn02iscsi/agisel/Cassava/Ismail/WGS/raw_data/3422_7332_10694_H9WVUADXX_I961089A_CTTGTA_R1.fastq.gz
q2=/syn02iscsi/agisel/Cassava/Ismail/WGS/raw_data/3422_7332_10694_H9WVUADXX_I961089A_CTTGTA_R2.fastq.gz
#another pair of fastq file, read 1 file should always be followed by read 2 file
q1=/syn02iscsi/agisel/Cassava/Ismail/WGS/raw_data/3422_7332_10694_HA63NADXX_I961089A_CTTGTA_R1.fastq.gz
q2=/syn02iscsi/agisel/Cassava/Ismail/WGS/raw_data/3422_7332_10694_HA63NADXX_I961089A_CTTGTA_R2.fastq.gz
#a pair of fasta file, read 1 file should always be followed by read 2 file
[LIB]
avg_ins=500
reverse_seq=o
asm_flags=3
rank=2
# cutoff of pair number for a reliable connection (at least 5 for large insert size)
pair_num_cutoff=5
#minimum aligned length to contigs for a reliable read location (at least 35 for large insert size)
map_len=35
q1=/syn02iscsi/agisel/Cassava/Ismail/WGS/raw_data/3423_7332_10706_H9WVUADXX_I961089A_500_ATTCCT_R1.fastq.gz
q2=/syn02iscsi/agisel/Cassava/Ismail/WGS/raw_data/3423_7332_10706_H9WVUADXX_I961089A_500_ATTCCT_R2.fastq.gz
#a pair of fastq file, read 1 file should always be followed by read 2 file
q1=/syn02iscsi/agisel/Cassava/Ismail/WGS/raw_data/3423_7332_10706_HA63NADXX_I961089A_500_ATTCCT_R1.fastq.gz
q2=/syn02iscsi/agisel/Cassava/Ismail/WGS/raw_data/3423_7332_10706_HA63NADXX_I961089A_500_ATTCCT_R2.fastq.gz
#a pair of fastq file, read 1 file should always be followed by read 2 file
q1=/syn02iscsi/agisel/Cassava/Ismail/WGS/raw_data/3423_7332_10706_HAK9RADXX_I961089A_500_ATTCCT_R1.fastq.gz
q2=/syn02iscsi/agisel/Cassava/Ismail/WGS/raw_data/3423_7332_10706_HAK9RADXX_I961089A_500_ATTCCT_R2.fastq.gz
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