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Hi There,
I try to use Circleator to plot a circos for my genome assembly. The genome includes several large-size chromosomes. After running the following command, I got some errors:
./Circleator/bin/circleator --data=genome.gbff --config=genes-only.txt --pad=100 > pa-genes-only.svg
Hi There,
I try to use Circleator to plot a circos for my genome assembly. The genome includes several large-size chromosomes. After running the following command, I got some errors:
./Circleator/bin/circleator --data=genome.gbff --config=genes-only.txt --pad=100 > pa-genes-only.svg
------------- EXCEPTION: Bio::Root::Exception -------------
MSG: Failed validation of sequence '1'. Invalid characters were:
STACK: Error::throw
STACK: Bio::Root::Root::throw /cvmfs/soft.computecanada.ca/easybuild/software/2020/Core/bioperl/1.7.7/lib/perl5/site_perl/5.30.2/Bio/Root/Root.pm:449
STACK: Bio::PrimarySeq::validate_seq /cvmfs/soft.computecanada.ca/easybuild/software/2020/Core/bioperl/1.7.7/lib/perl5/site_perl/5.30.2/Bio/PrimarySeq.pm:338
STACK: Bio::PrimarySeq::_set_seq_by_ref /cvmfs/soft.computecanada.ca/easybuild/software/2020/Core/bioperl/1.7.7/lib/perl5/site_perl/5.30.2/Bio/PrimarySeq.pm:287
STACK: Bio::PrimarySeq::seq /cvmfs/soft.computecanada.ca/easybuild/software/2020/Core/bioperl/1.7.7/lib/perl5/site_perl/5.30.2/Bio/PrimarySeq.pm:272
STACK: Bio::PrimarySeq::new /cvmfs/soft.computecanada.ca/easybuild/software/2020/Core/bioperl/1.7.7/lib/perl5/site_perl/5.30.2/Bio/PrimarySeq.pm:229
STACK: Bio::Seq::new /cvmfs/soft.computecanada.ca/easybuild/software/2020/Core/bioperl/1.7.7/lib/perl5/site_perl/5.30.2/Bio/Seq.pm:499
STACK: Bio::Seq::RichSeq::new /cvmfs/soft.computecanada.ca/easybuild/software/2020/Core/bioperl/1.7.7/lib/perl5/site_perl/5.30.2/Bio/Seq/RichSeq.pm:128
STACK: ./Circleator/bin/circleator:705
Do you have any idea to solve the problem. I would be appreciated if you could help me in this regard.
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