Comments (1)
I have implemented (i) above, i.e. pruned clocks are disabled for RLC analyses and the user is informed of this if using --verbose
. (ii) is still something I would like to do, but it's not an urgent goal. I'm not going to close the issue, so that there is a reminder to do (ii) someday, but I am going to remove the 1.2.0 milestone because I think (i) alone is good enough to solve this for 1.2.0, as it will prevent people running flawed analyses.
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Related Issues (20)
- CLDF dataset loading pains HOT 19
- "The Yule model is not particularly suitable for linguistic analyses, however it is currently the best BEAST has to offer." HOT 7
- ASR tests fail HOT 33
- log_params duplicates log entries. HOT 1
- Refactor beastrun tests? HOT 6
- Unify file handling HOT 2
- Remove the dependency on clldutils HOT 2
- Remaining synonym issues
- Hack BEAST XML using DOM notation? HOT 2
- OSError: File name too long, instead of being interpreted as list HOT 1
- Make TreePrior.add_state_nodes use state instead of beastxml
- LogNormal Relaxed Clock parameterized by “variance”, is actually “stdev in log space”
- PyYAML, an indirect dependency, needs Python>3.4 HOT 4
- Document and Unify Exit Codes
- Should base-clocks/models/priors be abstract?
- Report could use slightly more clever templating
- Should __distribution__ be a property of all clocks?
- 'BinaryModel' object has no attribute 'share_params' HOT 11
- Binary CTMC binarised=True
- BEASTling does not clean up concept names with commas properly
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