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Acceptance branch fails when calling Trinity; deprecated option #157

Closed bocajnotnef closed 9 years ago

bocajnotnef commented 9 years ago 
root@screedaccept:/mnt/work# /root/trinityrnaseq*/Trinity --left left.fq --right right.fq --seqType fq --JM 10G
Error, do not understand options: --JM 10G

Should be:

/root/trinityrnaseq*/Trinity --left left.fq --right right.fq --seqType fq --max_memory 10G
mr-c commented 9 years ago

Fixed by #158