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.

Sign up for GitHub

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

Jump to bottom

Importing from RPD Standalone format is not operational. #6

Open
ialbert opened this issue Jul 14, 2017 · 0 comments
Open

Importing from RPD Standalone format is not operational. #6

ialbert opened this issue Jul 14, 2017 · 0 comments

Comments

@ialbert
Copy link

ialbert commented Jul 14, 2017 •
edited
Loading

When using MEGAN 6 we were unsuccessful in importing data in the "RDP Standalone" classification format.

Notably this same file in RDP Standalone format loads correctly in MEGAN 5.

Looking at the code below:

https://github.com/danielhuson/megan-ce/blob/master/src/megan/parsers/blast/RDPStandalone2SAMIterator.java

It does not appear that it attempts to do the right thing. As the MEGAN 6 manual states the RDP Standalone format is:

read-name [-] [taxon-name rank-name disjointScore] [taxon-name rank-name disjointScore]

whereas the code above attempts to split by ; among other things.
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Assignees
No one assigned
Labels
None yet
Projects
None yet
Milestone
No milestone
Development

No branches or pull requests
1 participant
@ialbert