[maker-devel] Request for support on maker pipeline

[Gezahegn Girma]

Hello,

I am using maker for genome annotation of sorghum genotype.

Maker is running and keep increasing the log file but I see the following error messages. This is to request for your kind support to resolve this issue.

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STATUS: Now running MAKER...

WARNING: Cannot find >0, trying to re-index the fasta.

stop here: 0

ERROR: Fasta index error

 at /depot/bioinfo/apps/apps/MAKER-2.31.10-nompi/bin/../lib/Process/MpiChunk.pm line 239.

        Process::MpiChunk::_prepare(Process::MpiChunk=HASH(0x5e83458), HASH(0x5e8f9b0), 0) called at /depot/bioinfo/apps/apps/MAKER-2.31.

10-nompi/bin/../lib/Process/MpiTiers.pm line 73

          Process::MpiTiers::__ANON__() called at /depot/bioinfo/apps/apps/MAKER-2.31.10-nompi/bin/../lib/Error.pm line 415

         eval {...} called at /depot/bioinfo/apps/apps/MAKER-2.31.10-nompi/bin/../lib/Error.pm line 407

          Error::subs::try(CODE(0x5e89c60), HASH(0x5e8f6f8)) called at /depot/bioinfo/apps/apps/MAKER-2.31.10-nompi/bin/../lib/Process/MpiT

iers.pm line 79

        Process::MpiTiers::_prepare(Process::MpiTiers=HASH(0x5e902f8)) called at /depot/bioinfo/apps/apps/MAKER-2.31.10-nompi/bin/../lib/

Process/MpiTiers.pm line 56

         Process::MpiTiers::new("Process::MpiTiers", HASH(0x5e89870), 0, "Process::MpiChunk") called at /group/bioinfo/apps/apps/MAKER-2.3

1.10-nompi/bin/maker line 669

--> rank=NA, hostname=bell-a105.rcac.purdue.edu

ERROR: Failed in tier preparation

examining contents of the fasta file and run log

.

.

.

Warning: [blastn] Query_1 1 97 18 masked CH.. : Could not calculate ungapped Karlin-Altschul parameters due to an invalid query sequence  or its 

translation. Please verify the query sequence(s) and/or filtering options

deleted:0 hits

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Regards,

Gez