Gereon Kaiping

Cryptic ArgumentError lets ERAlchemy fail to load sqlite db

4

Some time ago, I managed to generate a nice ER diagram from a previous version of my database. Howerver today, running `eralchemy` on my sqlite database $ file lexirumah.sqlite lexirumah.sqlite:...

Publishing Dictionaries

4

Is there a place to publish dictionaries to? QuickDic looks like a reasonable app for dropping dictionaries into that we generated from linguistic fieldwork (Alorese Abui – Indonesian right now,...

I am trying to generate a HTML bibliography, and for that it would be nice if citeproc supported the “should” in [“processors should include links on bibliographic references”](https://docs.citationstyles.org/en/stable/specification.html#appendix-vi-links ) for...

Parking Garages

1

In the European city I'm running in abstreet at the moment, street parking is neither particularly frequent nor particularly well annotated, but there's a lot of public parking garages. They...

Conflict of Optimized Relaxed Clock and Sampled Ancestors

12

A sudden IndexError in an analysis had me stumped for some time. I have now figured out why it happens, but not how to fix it. Symptoms: For the analysis...

Resuming with a RandomTree messes up the tree

2

I have a file that initializes its tree with a RandomTree and some MRCA calibrations with monophyly constraints. When I resume it, the MRCA priors have a probability of 0.0...

I know you are not the mainainers of Cipres, but we have contacted them in vain and not heard back, so in case the problem is obvious on the BEAST2...

The core code to parse ranges in filtered alignments is https://github.com/CompEvol/beast2/blob/1ba8d2bff70d4fe69b355c2c3670f32295a88e6e/src/beast/evolution/alignment/FilteredAlignment.java#L100-L107 In that code, the comment uses a forward slash, but the code splits according to a backward slash. //...

Later Java versions complain about split packages

4

I just tried to run beast2 and BEASTLabs in Eclipse without restricting it to an old compatibility level of Java version, but I can't. The error is The package beast.app.tools...

Package-private fields

1

What is the reason that there are quite a few package-private (i.e. not marked as “private”, “protected” or “public”) fields in Beast2 classes? I am now looking into writing a...