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

Error for ordering step #62

Open
clementmo opened this issue Dec 17, 2019 · 0 comments
Open

Error for ordering step #62

clementmo opened this issue Dec 17, 2019 · 0 comments

Comments

@clementmo
Copy link

My Lanchesis is compiled with samtools-0.1.19 and boost_1_54_0. After run for a while, the progress is aborted, with the following error in the log file.

"Loading contig RE lengths for use in normalization <- *****/cached_data/group0.CLM.RE_sites
MakeTrunkOrder!
min_len_reduced = 15, N_long_contigs = 1229
prim_minimum_spanning_tree (iteration #0, previous trunk_size = 0)
terminate called after throwing an instance of 'boost::exception_detail::clone_impl<boost::exception_detail::error_info_injectorboost::negative_edge >'
what(): The graph may not contain an edge with negative weight."

Under the directory out_putfile/cached_data/ , group*.CLM, group*.CLM.lens and group*.CLM.RE_sites have been generated, lacking group*.trunk.ordering.
Under the directory out_putfile/main_results/, only clusters.by_name.txt and clusters.txt are generated, lacking all the group*.ordering files.
What is the problem and how can I solve it?
Thank for someone who can provide solutions and suggestions!

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