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Old 04-26-2015, 11:29 PM   #1
Location: France

Join Date: Aug 2013
Posts: 18
Default RepeatModeler genomic assembly BuildDatabase error

Hi folks,
I faced a problem when I am running in a server BuildDatabase before RepeatModeler using a multifasta genome assembly (1g_modif.fasta) containing 12 unitigs, with nucleotides letters in capital, and sequences names as U1,U2,U3 etc. My command is as follow:

BuildDatabase -name 1g -engine ncbi 1g_modif.fasta

The BuildDatabase is running instantly but the following is depicted

Building database 1g:
Adding 1g_modif.fasta to database
Number of sequences (bp) added to database: 0 ( 0 bp )

Seems that the database didnt manage to add any sequences (unitigs) and bp in the database. I guess the problem should be probably in the format of the input multifasta file of the genomic assemble but really I dont know where exactly

Any ideas or suggestions?
Thanks in advance
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Old 05-01-2015, 02:56 PM   #2
Location: Canada

Join Date: Apr 2013
Posts: 17

I met the same problem.
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Old 04-11-2016, 06:50 PM   #3
Junior Member
Location: Atlanta, GA

Join Date: Jul 2013
Posts: 5

I solved it by using rmblast version 2.2.23.

Hope this helps!

Last edited by RoseString; 04-11-2016 at 07:05 PM.
RoseString is offline   Reply With Quote

assembly, genomics

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