On 21 janvier 2014 09:48, Pabinger Stephan [stephan.pabin...@ait.ac.at] wrote: > À : denovoassembler-users@lists.sourceforge.net > Objet : Re: [Denovoassembler-users] Compiling and running Ray on Gentoo > > Hi, > > -- How many ranks? > The log only mentions "Rank 0" > > -- Command? > Ray -o ray -n 5 -k 9 -s test.fastq
Hi, 9 is a pretty low k-mer length. Also, the number of ranks (-n 5) must be given to mpiexec, not Ray. Try this: mpiexec -n 5 Ray -o ray -k 9 -s test.fastq # (obviously, you want to try a larger k) > > Thanks, > Stephan > > > -----Ursprüngliche Nachricht----- > Von: Sébastien Boisvert [mailto:s...@boisvert.info] > Gesendet: Donnerstag, 16. Januar 2014 18:25 > An: Pabinger Stephan; denovoassembler-users@lists.sourceforge.net > Betreff: Re: Compiling and running Ray on Gentoo > > On 16/01/14 09:40 AM, Pabinger Stephan wrote: >> Hi Sebastien, >> >> thanks for the wonderful Ray assembler. >> >> I just wanted to let you know that I had a small problem compiling Ray on >> Gentoo. I had to add "#include <cstring>" to the "Ray/Ray/actors/Actors.cpp" >> class. >> > > This was fixed -> > https://github.com/sebhtml/RayPlatform/commit/3268f32318e6918ce4c4a15e82461f6c169ef17d > and the fix will ship in Ray 2.3.1. > >> However, now I'm getting the following error message when running Ray: >> >> Rank 0 : VirtualCommunicator (service provided by VirtualCommunicator): 0 >> virtual messages generated 0 real messages (0%) >> >> Fatal error in PMPI_Isend: Invalid rank, error stack: >> >> PMPI_Isend(146): MPI_Isend(buf=0x7f55481d89d0, count=8, MPI_BYTE, dest=1, >> tag=224, MPI_COMM_WORLD, request=0x2190f40) failed >> >> PMPI_Isend(94).: Invalid rank has value 1 but must be nonnegative and less >> than 1 >> >> Rank 0 freed 4194304 bytes from the path memory pool (chunks: 1) >> >> Could you please help me with that? >> > > How many ranks are you using ? > > What is your command line ? > > > P.S.: please use the mailing list > >> Best regards, >> >> Stephan >> > > > ------------------------------------------------------------------------------ > CenturyLink Cloud: The Leader in Enterprise Cloud Services. > Learn Why More Businesses Are Choosing CenturyLink Cloud For > Critical Workloads, Development Environments & Everything In Between. > Get a Quote or Start a Free Trial Today. > http://pubads.g.doubleclick.net/gampad/clk?id=119420431&iu=/4140/ostg.clktrk > _______________________________________________ > Denovoassembler-users mailing list > Denovoassembler-users@lists.sourceforge.net > https://lists.sourceforge.net/lists/listinfo/denovoassembler-users ------------------------------------------------------------------------------ CenturyLink Cloud: The Leader in Enterprise Cloud Services. Learn Why More Businesses Are Choosing CenturyLink Cloud For Critical Workloads, Development Environments & Everything In Between. Get a Quote or Start a Free Trial Today. http://pubads.g.doubleclick.net/gampad/clk?id=119420431&iu=/4140/ostg.clktrk _______________________________________________ Denovoassembler-users mailing list Denovoassembler-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/denovoassembler-users
