node labels cause problems in plotting

[cew35]

node labels cause problems in plotting

[redcurry]

Do you refer to BAMMtools plot functions? Could you be more specific about the node labels? Are they tip labels or internal labels? How do you know it is the node labels and not something else? Thank you.

[cew35]

Hi Carlos,

Yes, BAMMtools plot functions — Dan found the issue and asked me to post something on github to remind him about it.

Katie

On Jun 12, 2014, at 4:34 PM, Carlos Anderson [email protected] wrote:

Do you refer to BAMMtools plot functions? Could you be more specific about the node labels? Are they tip labels or internal labels? How do you know it is the node labels and not something else? Thank you.

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[blueraleigh]

I have trouble reproducing this error, can you describe the circumstances under which it occurs?

[cew35]

Hi,

I wrote to Carlos yesterday also, but the issue was one that Dan found during the workshop yesterday and asked me to post so he would remember. getEventData() runs without error if you give it a tree with node labels, but the event vectors are all filled with NAs. Then when you try to use plotting functions you get an error ("Error in seq.default(ephy$begin[i]/tH, ephy$end[i]/tH, tau) : 'from' cannot be NA, NaN or infinite”).

The fix is simple. Just replace node labels with “NULL” if a user tries to use a tree that already has node labels.

Cheers,
Katie

On Jun 12, 2014, at 6:45 PM, blueraleigh [email protected] wrote:

I have trouble reproducing this error, can you describe the circumstances under which it occurs?

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