Perl 6 - the future is here, just unevenly distributed

IRC log for #opentreeoflife, 2015-03-05

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All times shown according to UTC.

Time Nick Message
03:40 josephwb joined #opentreeoflife
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18:02 kcranstn hangout link for synthesis: https://plus.google.com/hangouts/_/calendar/OGI4ZTA3aGVvZDM2OGloNGl1YjloYnNtcGdAZ3JvdXAuY2FsZW5kYXIuZ29vZ2xlLmNvbQ.7gagsgd0fktatum2ts5ldgasso
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18:05 mtholder josephwb are the UMich folks going to make the call?
18:05 jar286 joined #opentreeoflife
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19:01 jar286 synthesis call continues… we’ll get to PR review soonish
19:01 jimallman ok, standing by here
19:34 jar286 ok, let’s see what we got…
19:35 jar286 https://github.com/pulls?user=OpenTreeOfLife
19:35 jar286 https://github.com/OpenTreeOfLife/reference-taxonomy/pull/127
19:36 jar286 I think KC wanted some acceptance tests
19:36 jar286 I should have made notes last time
19:36 kcranstn I want some way of judging whether to accept this or not
19:37 jar286 Accepting this PR is not a commitment to this draft taxonomy as the final 2.9
19:38 jar286 Usually acceptance comes from review, and this PR is on the way to getting review
19:38 jar286 i.e. after review there will be further drafts
19:39 kcranstn ok, but I am still not sure how to judge this PR
19:41 jar286 I could run the monophyly and descent tests, I suppose
19:41 jar286 or provide stats...
19:41 jar286 what would you expect to see?
19:42 kcranstn are there tests?
19:42 jar286 just the short list of monophyly and descent tests in the germintor repo
19:43 jar286 all the logging could be seen as tests - the deprecated list, the diff file, etc.
19:45 jar286 the conflicts list.  many of these I go through by hand, checking things at random
19:45 jar286 “I checked 10 deprecated ids chosen at random and determined that all deprecations were justified”
19:46 jar286 I’ll make an issue to do the germinator tests on the taxonomy
19:46 kcranstn cool
19:47 jar286 https://github.com/OpenTreeOfLife/reference-taxonomy/issues/128
19:47 jar286 but would that be sufficient?
19:48 kcranstn I suppose we need to separate “the code does what we think it does” (which we can review) from “the new taxonomy is biologically reasonable” (which we cannot review)
19:48 kcranstn we = software folks
19:50 jar286 the question is, is accepting this PR contingent on review from, say, Keith?
19:50 kcranstn you did say “Accepting this PR is not a commitment to this draft taxonomy as the final 2.9"
19:50 jar286 that’s right, I just wanted to get this stuff on the master branch.  2.9 comes later
19:51 kcranstn ok, then let’s merge
19:51 kcranstn after isseu 128
19:51 jar286 ok.
19:51 jar286 moving on…
19:52 jar286 jimallman said 2 hours ago that it’s merge-worthy
19:52 jimallman yes, #613 is working well with the latest peyotl/master
19:53 jimallman and we’ve already reviewed this code… we were about to merge when i realized the empty-comment bug (now fixed(
19:53 jimallman )
19:53 jar286 right, I say merge
19:54 jar286 hearing no objection…
19:54 jar286 done
19:55 jar286 ok, we’re done… I would suggest we not do the deployment today since it’s just that one small change
19:55 jimallman ok by me.
19:55 kcranstn ok
19:58 pmidford2 joined #opentreeoflife
20:13 jar286 kcranstn, have you heard of B. Rosemary Grant or Peter R. Grant?
20:13 kcranstn yes
20:13 jar286 I’m going to hear them speak today at AAAS
20:14 kcranstn they are great speakers
20:14 jar286 (that’s the American Academy of Arts & Sciences, not the other AAAS)
20:14 jar286 ’40 years of evolution’ - whatever that means
20:16 jar286 ah, 40 years is a reference to their fieldwork
20:17 kcranstn makes sense
21:24 kcranstn joined #opentreeoflife
21:26 josephwb jar286 - the Grants are near legends in evol. biol.
21:26 josephwb i agree with kcranstn: very good speakers
21:27 jar286 They must be good if they’re talking at AAAS… looking forward to it
21:28 josephwb largely responsible for the Darwin's Finches system
21:28 josephwb "evolution on a human timescale" deal
21:29 josephwb don't be expecting high mathematics tho
21:30 josephwb more like decades worth of collecting a ton of data
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