MAXKMERLENGTH is a compilation parameter so you need to re-install it. -k (the k-mer length) is a run-time parameter.
(I CC'ed the list) On 21/11/11 11:47 PM, Rakesh Patro wrote: > should i run these command going into the installed Ray-1.6.3 folder > or anywhere?? > > 2011/11/21 Sébastien Boisvert <[email protected] > <mailto:[email protected]>> > > You don't need to change it in the Makefile. > > [@ ray]$ make clean > [@ ray]$ make MAXKMERLENGTH=64 PREFIX=ray-64 > [@ ray]$ make install > > [@ ray]$ ./ray-64/Ray -version > Ray version 1.7.1 > License: GNU General Public License > > MAXKMERLENGTH: 64 > KMER_U64_ARRAY_SIZE: 2 > MAXIMUM_MESSAGE_SIZE_IN_BYTES: 4000 bytes > FORCE_PACKING = n > ASSERT = n > HAVE_LIBZ = n > HAVE_LIBBZ2 = n > CONFIG_PROFILER_COLLECT = y > CONFIG_CLOCK_GETTIME = n > __linux__ = y > _MSC_VER = n > __GNUC__ = y > RAY_32_BITS = n > RAY_64_BITS = y > > > Then: > > mpiexec -n 16 -k 63 ./ray-64/Ray -p s_1.fastq s_2.fastq -o test-k63 > > > > > On 21/11/11 06:23 AM, Rakesh Patro wrote: > > Hello, > > Greetings!! > > > > I have installed Ray assembler 1.6.1 in a Cent OS linux cluster > in the > > mpi environment with 10 nodes. But at the time of installation I had > > by mistaken put MAKMERLENGTH =32, but now I changed the > MAXKMERLENGTH > > in the Makefile file in Ray-1.6.1 folder and run the command > giving -s > > -p inputs. After completion i checked the output and it is still > > taking and compiling with 21 k-mer length even after changing -k > as 64 > > in the command too. Please help on urgent basis. > > > > -- > > Thanks and Regards, > > Rakesh Patro - Assoc. IT Engnr. > > CMC Ltd - A TATA Enterprise > > Delhi > > 9716912942 > > > > > > ------------------------------------------------------------------------------ > All the data continuously generated in your IT infrastructure > contains a definitive record of customers, application performance, > security threats, fraudulent activity, and more. Splunk takes this > data and makes sense of it. IT sense. And common sense. > http://p.sf.net/sfu/splunk-novd2d > _______________________________________________ > Denovoassembler-users mailing list > [email protected] > <mailto:[email protected]> > https://lists.sourceforge.net/lists/listinfo/denovoassembler-users > > > > > -- > Thanks and Regards, > Rakesh Patro - Assoc. IT Engnr. > CMC Ltd - A TATA Enterprise > Delhi > 9716912942 > ------------------------------------------------------------------------------ All the data continuously generated in your IT infrastructure contains a definitive record of customers, application performance, security threats, fraudulent activity, and more. Splunk takes this data and makes sense of it. IT sense. And common sense. http://p.sf.net/sfu/splunk-novd2d _______________________________________________ Denovoassembler-users mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/denovoassembler-users
