[maker-devel] Support on maker

[Gezahegn Girma]

Hi Barry,

Thank you so much for the kind reply and suggestion to join mailing list.

Looking forward for support to resolve the issues.

Regards,
Gez

> On Oct 29, 2021, at 02:24, Marvin B Moore <barry.moore at genetics.utah.edu> wrote:
> 
> Hi Gez,
>  
> I’m forwarding you e-mail to the maker-devel mailing list for support.  This mailing list is a good place to direct questions like this one.  If you aren’t aleady a member of this mailing list, I’d highly recommend you join here:
>  
> http://yandell-lab.org/mailman/listinfo/maker-devel_yandell-lab.org <http://yandell-lab.org/mailman/listinfo/maker-devel_yandell-lab.org>
>  
> Cheers,
>  
> Barry
>  
> From: Gezahegn Girma <ggirmate at purdue.edu>
> Date: Thursday, October 28, 2021 at 12:19 PM
> To: Marvin B Moore <barry.moore at genetics.utah.edu>
> Subject: Support on maker
> 
> Hi Barry,
>  
> 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. Kindly, this is to request for your kind support to resolve this issue.
>  
> =========================================================
> 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 <http://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
> ================================================================================
> Regards,
> Gez

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