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FastaDB::_getFastaRecords: Could not locate lastSeqID=gi|5Query_574! at /my_path/RepeatModeler-2.0.2a/RepeatUtil.pm line 309 #140
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That sounds like a bug in RepeatModeler, but it could also be caused by a temporary or environment failure (such as out of memory / out of disk space). Is the genome file you ran RepeatModeler on publicly available, and if so can you provide a link to it? We would also need the seed number (near the beginning of Another option you can try right away, if you haven't already, is to try to run RepeatModeler again on the same data. RepeatModeler uses a sampling approach, so a second run would process different portions of the genome in a different order - potentially avoiding the problem. |
Hi Jeb, Thank you so much for your reply. I think I did not see my computer was out of memory / disk space for some reasons. This is the header information on
And the genome that I used for buliding database can be found on New update: I installed the RepeatMasker myself instead of using bioconda, and it worked fine in the round 2 process. However, after round 6, I got another error Thanks! Lin |
The What was the seed number for that run? Alternatively, if you can compress and upload or attach the contents of the |
Hello,
I got the error message during round 2 generating
FastaDB::_getFastaRecords: Could not locate lastSeqID=gi|5Query_574! at /my_path/RepeatModeler-2.0.2a/RepeatUtil.pm line 309.
when I runned RepeatModeler using command line:RepeatModeler -database my_db_name -pa 4 -LTRStruct > run.out
And before that, I generated the database using:
BuildDatabase -name my_db_name my_genome.fa
The following is all the things in the
run.out
file:I configured all the dependencies following the instruction, but it could be possible there are something wrong with my configuring processes. Do you have any idea why this error happened?
Thanks in advance.
Lin
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