Hi i'm new to MaSuRCA and got this error while trying to do my first assembly, below is the config file and the output from MaSuRCA. thanks
Thanks a lot
processing PE library reads Wed May 29 16:53:40 EDT 2013
Average PE read length 251
choosing kmer size of 175 for the graph
running Jellyfish Wed May 29 16:54:06 EDT 2013
Error correction Poisson cutoff = 5
error correct PE Wed May 29 17:24:40 EDT 2013
terminate called after throwing an instance of 'jellyfish::file_parser::FileParserError'
what(): Empty input file 'pe.cor.fa'
./assemble.sh: line 58: 610 Aborted jellyfish count -p 126 -m 31 -t 12 -C -s $JF_SIZE -o k_u pe.cor.fa
ln: creating symbolic link k_u_hash_0' to k_u_0': File exists
terminate called after throwing an instance of 'mapped_file::ErrorMMap'
what(): Can't open file k_u_hash_0:
Estimated genome size:
Invalid uint64_t '-l' for [-n, --nb-mers=uint64]: Negative value
computing super reads from PE Wed May 29 17:29:02 EDT 2013
Super reads failed, check super1.err and files in ./work1/
PE= pe 300 20 /gpfs/home/jzr186/scratch/CAMP/CAMP18/JH_R1_001.fastq /gpfs/home/jzr186/scratch/CAMP/CAMP18/JH_R2_001.fastq