Perl 6 - the future is here, just unevenly distributed

IRC log for #opentreeoflife, 2015-05-17

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All times shown according to UTC.

Time Nick Message
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01:17 kcranstn jar?
01:27 jar286 here
01:27 jar286 kcranstn ^
01:28 kcranstn just wanted to note that I agree with you re:wanting more detail about why in the TAG creation section, but I don’t think it is going to happen so I am going to resolve those comments in the gdoc
01:29 jar286 of course
01:34 kcranstn trying to decide whether the synthesis section needs to be explicit about the fact that this is a multigraph
01:35 jar286 hmm… not really necessary, since that’s said above, and implicit in the synthesis method
01:35 jar286 it might be clearer if something were said, but doing so is not essential
01:38 kcranstn the best set of edges does not include any parallel edges
01:39 kcranstn but the scoring is across all parallel edges
01:39 jar286 hmm
01:39 jar286 I haven’t gone over the synthesis section carefully
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01:50 Topic for #opentreeoflife is now Open Tree Of Life | opentreeoflife.org | github.com/opentreeoflife | http://irclog.perlgeek.de/opentreeoflife/today
01:50 kcranstn ok, I”ll add the reference and a note in the text
01:50 jar286 I had a conversation with Cody that gave me the epiphany
01:50 kcranstn epiphanies are pretty awesome
01:50 jar286 I think he said that testSums might be more conservative than that test
01:51 jar286 the conversation was in IRC, you could take a look
01:51 jar286 i.e. the test is the right one, but testSums might say a node is unsupported when it’s actually supported
01:51 jar286 but I can’t confirm that
01:51 jar286 (can’t confirm that it might miss some cases)
01:52 jar286 that paper probably isn’t the best source - it’s just one that turned up in a web search
01:52 jar286 i.e. it might be a secondary source
01:53 jar286 but I don’t think that matters a whole lot
01:54 jar286 I suggested replacing ‘TAG’ with ‘scaffold’ in Adding nodes by walking paths in the TAG
01:54 kcranstn saw that. agree.
02:05 jar286 kcranstn, just commented on https://github.com/OpenTreeOfLife/treemachine/issues/156
02:05 jar286 about the support failure bug
02:10 jar286 I should move that comment to issue 78…
02:10 kcranstn in hindsight, establishing a consistent definition of support would have helped us greatly
02:12 jar286 moved
02:13 jar286 I assumed all you tree experts knew all about supertrees… my understanding came yesterday & today by doing a few web searches & scanning some articles
02:14 jar286 there seems to be pretty consistent theory & termnology among the mathematicians who do this stuff
02:14 kcranstn assume nothing
02:14 jar286 it’s been my undoing all my life
02:15 jar286 my epiphany came when I realized this was all about model theory. I understand model theory
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