Hello, My assembly at a kmer 59 failed. I used 5 libraries of paired end data as input:
mpiexec -n 32 Ray -k 59 -p /shared/reads/LIB/NC2/GDR-18_NC2_1.fastq /shared/reads/LIB/NC2/GDR-18_NC2_2.fastq -p /shared/reads/LIB/NC2/GDR-19_NC2_1.fastq /shared/reads/LIB/NC2/GDR-19_NC2_2.fastq -p /shared/reads/LIB/NC2/GDR-20_NC2_1.fastq /shared/reads/LIB/NC2/GDR-20_NC2_2.fastq -p /shared/reads/LIB/NC2/GDR-21_NC2_1.fastq /shared/reads/LIB/NC2/GDR-21_NC2_2.fastq -p /shared/reads/LIB/NC2/GDR-22_NC2_1.fastq /shared/reads/LIB/NC2/GDR-22_NC2_2.fastq -p /shared/reads/LIB/NC2/GDR-23_NC2_1.fastq /shared/reads/LIB/NC2/GDR-23_NC2_2.fastq -o all_libraries ... Rank 20: 0 have some biological signal Number of dereferenced alternate handles: 0 Number of k-mer observations with gene ontology terms: 0 Rank 20: synced ontology term profiles with master Rank 3: 0 have some biological signal Number of dereferenced alternate handles: 0 Number of k-mer observations with gene ontology terms: 0 Rank 3: synced ontology term profiles with master Rank 17: 0 have some biological signal Number of dereferenced alternate handles: 0 Number of k-mer observations with gene ontology terms: 0 Rank 17: synced ontology term profiles with master Rank 8: 0 have some biological signal Number of dereferenced alternate handles: 0 Number of k-mer observations with gene ontology terms: 0 Rank 8: synced ontology term profiles with master Rank 16: 0 have some biological signal Number of dereferenced alternate handles: 0 Number of k-mer observations with gene ontology terms: 0 Rank 16: synced ontology term profiles with master Rank 10: 0 have some biological signal Number of dereferenced alternate handles: 0 Number of k-mer observations with gene ontology terms: 0 Rank 10: synced ontology term profiles with master Rank 7: 0 have some biological signal Number of dereferenced alternate handles: 0 Number of k-mer observations with gene ontology terms: 0 Rank 7: synced ontology term profiles with master Rank Rank Rank 1: the CorePlugin GenomeNeighbourhood is disabled... Rank Rank 7Rank 108Rank : the CorePlugin GenomeNeighbourhood is disabled...: the CorePlugin GenomeNeighbourhood is disabled...Rank : the CorePlugin GenomeNeighbourhood is disabled...Rank 919Rank Rank Rank Rank 16Rank 1718Rank : the CorePlugin GenomeNeighbourhood is disabled...21: the CorePlugin GenomeNeighbourhood is disabled...22 31: the CorePlugin GenomeNeighbourhood is disabled...: the CorePlugin GenomeNeighbourhood is disabled...: the CorePlugin GenomeNeighbourhood is disabled... 20 : the CorePlugin GenomeNeighbourhood is disabled... : the CorePlugin GenomeNeighbourhood is disabled... 15: the CorePlugin GenomeNeighbourhood is disabled... : the CorePlugin GenomeNeighbourhood is disabled... : the CorePlugin GenomeNeighbourhood is disabled... Rank 43: the CorePlugin GenomeNeighbourhood is disabled... : the CorePlugin GenomeNeighbourhood is disabled... ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- 12:14:27 @NC2 ~/programs/ray $ I'm wondering what went wrong here. Adrian ------------------------------------------------------------------------------ DreamFactory - Open Source REST & JSON Services for HTML5 & Native Apps OAuth, Users, Roles, SQL, NoSQL, BLOB Storage and External API Access Free app hosting. Or install the open source package on any LAMP server. Sign up and see examples for AngularJS, jQuery, Sencha Touch and Native! http://pubads.g.doubleclick.net/gampad/clk?id=63469471&iu=/4140/ostg.clktrk _______________________________________________ Denovoassembler-users mailing list Denovoassembler-users@lists.sourceforge.net https://lists.sourceforge.net/lists/listinfo/denovoassembler-users
