Trailing underscores '_' stripped from sample names in LinkNode

[isaacovercast]

I discovered this while testing the common_ancestor function (thanks for that, btw). If I do something like this (where names is a list of sample names):

lfs = [x for x in getleaves(tre) if x.name in names]
print(lfs)

I get this:

[LinkNode Saxicola_tectes_REUNION_EU190909, a tip of the tree with an incoming connection (branch 45).
, LinkNode Saxicola_tectes_REUNION_EU190910, a tip of the tree with an incoming connection (branch 46).
, LinkNode Saxicola_tectes_REUNION_EU190911, a tip of the tree with an incoming connection (branch 47).
, LinkNode Saxicola_tectes_REUNION_EU190912, a tip of the tree with an incoming connection (branch 48).
]

However, the sample names in the nexus file are:

Saxicola_tectes_REUNION_EU190909
Saxicola_tectes_REUNION_EU190910
Saxicola_tectes_REUNION_EU190911
Saxicola_tectes_REUNION_EU190912_

so somewhere that trailing underscore is getting stripped. Not sure if this is a feature or a bug, but thought it worth reporting.

[richardreeve]

That really is weird. I can't imagine how that's something the parser thinks is sensible. I'm going to have to play around with the parser a bit and see what I can do with it, but this is peak teaching season for me at the moment, so it may be a few weeks I'm afraid...

[richardreeve]

@isaacovercast - sorry it has been so long, but I've been working on the parser recently and I can't see why the changes I've made so far would have fixed this, but I can't reproduce it - could you provide me with the file you found the problem with?