Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

MSG: Failed validation of sequence '1'. Invalid characters were: #39

Open
Karimi-81 opened this issue Oct 30, 2021 · 0 comments
Open

MSG: Failed validation of sequence '1'. Invalid characters were: #39

Karimi-81 opened this issue Oct 30, 2021 · 0 comments

Comments

@Karimi-81
Copy link

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.

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

No branches or pull requests

1 participant