MaSuRCA (Maryland Super-Read Celera Assembler) genome assembly software. Please cite our paper if you use MaSuRCA. MaSuRCA requires Illimina data, and it now supports third-generation PacBio/Nanopore MinION reads for hybrid assembly. MaSuRCA is distributed under an open source GPLv3 license.
Hi Aleksey. I am getting an odd error with some Illumina data I pulled off sra.
bash assemble.sh [Mon Jan 23 10:56:26 EST 2017] Processing pe library reads Average PE read length 101 choosing kmer size of 71 for the graph cat: write error: Broken pipe MIN_Q_CHAR: 33 WARNING: JF_SIZE set too low, increasing JF_SIZE to at least 2753536298, this automatic increase may be not enough!
Is this indicating the wrong quality score format? The assembly appears to continue past the error correction stage. The thing that doesn't happen is creating of the CA directory, although it does make work1.
Hi Aleksey.
ReplyDeleteI am getting an odd error with some Illumina data I pulled off sra.
bash assemble.sh
[Mon Jan 23 10:56:26 EST 2017] Processing pe library reads
Average PE read length 101
choosing kmer size of 71 for the graph
cat: write error: Broken pipe
MIN_Q_CHAR: 33
WARNING: JF_SIZE set too low, increasing JF_SIZE to at least 2753536298, this automatic increase may be not enough!
Is this indicating the wrong quality score format? The assembly appears to continue past the error correction stage. The thing that doesn't happen is creating of the CA directory, although it does make work1.
Thanks,
Bob