Error in secondary stucture mapping when there are longs gaps in the fasta file

[lbonnefond]

Hello,

I've been playing around with SSDraw and I like very much the rendering.

I have encountered an issue with one alignment where there are longs gaps for some of the sequences and the secondary structures where not properly mapped. I tried to track the origin of the problem and found that the issue occurs when there is a long gap. The critical size of the gap seems to depend on its location. For instance for your example protein 5ond, a gap of more than 20 after Arg11 or more than 42 after Pro133 breaks the mapping (see attached images).

I used the command python3 SSDraw.py --fasta 5ond.fasta --name 5OND_A --pdb 5ond.pdb --output 5ond and justed added gaps in the fasta file.

Best regards,
Luc

[porterll]

Thank you for bringing up this issue. Could you please share the input file you used to generate the diagrams? Also, what would you want the output to look like?