Hi Ergatis users,
I am trying to run prokaryotic annotation pipeline with a 5.2MB fasta file that contains a single sequence. But I am getting segmentation fault at start_site_curation step. When I trimmed the same fasta file into smaller sizes (1MB, 2MB) then run the pipeline respectively, they both passed. I ran start_site_curation.pl in debug mode; It seems successfully parsing input BSML file in subroutine parse_input_bsml. But segfault appears while exiting subroutine parse_input_bsml.
return value: 139
message: Error executing script exit value: 139/opt/ergatis/bin/start_site_curation: line 34: 16161 Segmentation fault /usr/bin/perl /opt/ergatis/bin/start_site_curation.pl "$@"
Has anyone seen the similar problem?
Any suggestions would be appreciated.
Thank you so much.
Paul Li
Bioscience Division
Los Alamos National Laboratory
Phone:(505) 664-0943
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