I did not provide the checkpoint directory with my first run so I'll redo it with the correct options.
Thanks for your help. On Oct 1, 2014, at 2:46 PM, Boisvert, Sebastien wrote: >> ________________________________________ >> From: Deborah Triant [dtri...@virginia.edu] >> Sent: Tuesday, September 30, 2014 7:36 PM >> To: denovoassembler-users@lists.sourceforge.net >> Subject: [Denovoassembler-users] using checkpoints >> Hi, >> I am using the Ray assembler and hit the walltime on my cluster. I want to >> continue the assembly using the '-read-write-checkpoints' option but from >> what I've been reading here on the mailing list, it seems that I cannot do >> this unless I include it as an option in my original run. >> Here is the format from my first run: >> ibrun Ray -p file1.fastq.gz -p file2.fastq.gz -show-memory-usage -o >> Ray.out 2>>Ray.error >>Ray.log > > The -p option takes 2 or 4 arguments, not 1. > >> >> For the second: >> ibrun Ray -p file1.fastq.gz -p file2.fastq.gz -show-memory-usage >> -read-write-checkpoints Ray_092614.checkpoints -o Ray2.out 2>>Ray.error >> >>Ray.log >> >> Would I have needed to include the -read-write-checkpoints in my first run >> for this to work or will Ray begin the run where it left off with the option >> included in the second run. I also changed the name of my output directory >> for the second run. > > > You need to use the same command, but you do have to change the output > directory. > > >> Thanks! >> Deb >> >> ------------------------------------------------------------------------------ >> Meet PCI DSS 3.0 Compliance Requirements with EventLog Analyzer >> Achieve PCI DSS 3.0 Compliant Status with Out-of-the-box PCI DSS Reports >> Are you Audit-Ready for PCI DSS 3.0 Compliance? Download White paper >> Comply to PCI DSS 3.0 Requirement 10 and 11.5 with EventLog Analyzer >> http://pubads.g.doubleclick.net/gampad/clk?id=154622311&iu=/4140/ostg.clktrk >> _______________________________________________ >> Denovoassembler-users mailing list >> Denovoassembler-users@lists.sourceforge.net >> https://lists.sourceforge.net/lists/listinfo/denovoassembler-users ------------------------------------------------------------------------------ Meet PCI DSS 3.0 Compliance Requirements with EventLog Analyzer Achieve PCI DSS 3.0 Compliant Status with Out-of-the-box PCI DSS Reports Are you Audit-Ready for PCI DSS 3.0 Compliance? Download White paper Comply to PCI DSS 3.0 Requirement 10 and 11.5 with EventLog Analyzer http://pubads.g.doubleclick.net/gampad/clk?id=154622311&iu=/4140/ostg.clktrk _______________________________________________ Denovoassembler-users mailing list Denovoassembler-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/denovoassembler-users
