Comments (4)
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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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.
—
Reply to this email directly or view it on GitHub.
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I have trouble reproducing this error, can you describe the circumstances under which it occurs?
from bamm.
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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Reply to this email directly or view it on GitHub.
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Related Issues (20)
- Support non-ultrametric trees HOT 1
- Pick lambdaInit0 from prior
- New add event proposal to pick branches HOT 2
- Simplified control file HOT 5
- Time-flip proposal prior
- Write MC3 documentation
- BAMM installation documentation HOT 3
- Analyze multiple trees HOT 1
- Top information when running BAMM HOT 1
- Add version information to bamm program header HOT 2
- getBestShiftConfiguration HOT 1
- threads not working on Ubuntu 14.04 LTS HOT 20
- E0 initializations
- high resolution clock for seed HOT 2
- Feature request: the ability to turn off density dependence HOT 9
- The option validateEventConfiguration gives wrong prior distribution HOT 1
- The extinction probability, E(t), are estimated incorretly HOT 1
- ensure compatibility of lambdaIsTimeVariablePrior and updateRateLambdaShift
- plot HOT 2
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