Perl 6 - the future is here, just unevenly distributed

IRC log for #opentreeoflife, 2015-08-21

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All times shown according to UTC.

Time Nick Message
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17:38 kcranstn working on help text / documentation - do we access anything through users’ GitHub accounts that is not public?
17:40 kcranstn modifications to this first paragraph ok? https://github.com/OpenTreeOfLife/opentree/wiki/Submitting-phylogenies-to-Open-Tree-of-Life
17:43 jimallman kcranstn: fyi, i think we’ve resolved that weird jump in devtree stats:  https://github.com/OpenTreeOfLife/germinator/issues/28
17:43 kcranstn yeah, I’ve been watching that convo
17:44 jimallman re: documentation, i don’t believe we currently access anything private on GitHub (even through users’ own accounts).
17:44 kcranstn thanks for confirming
17:45 jimallman first paragraph changes look great
17:46 kcranstn going through and reviewing help text in curator app, so putting in links to this wiki page
17:51 pmidford2 joined #opentreeoflife
17:52 pmidford2 Comcast is been flakey all week, but I'll try to hang on for the PR session
17:55 jimallman kcranstn: i’m adding /doc/README.md to the germinator repo, in preparation for synthesis release notes…
17:55 kcranstn awesome
18:00 pmidford2 PR time?
18:01 jimallman just a sec, committing start of germinator docs...
18:02 jimallman ok, ready now
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18:04 kcranstn ok
18:04 kcranstn let me switch back to devtree from local
18:06 kcranstn long load on the progress page
18:06 jimallman hm, not sure why it would be any slower
18:07 jimallman it’s been streamlined, if anything
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18:08 jimallman i’ll check the size of old vs. new phylesystem.json, that could be a factor
18:08 kcranstn why no taxonomy releases after June 2014?
18:08 kcranstn ah, we don’t have 2.9 yet
18:08 kcranstn wow, that’s a long gap
18:09 jimallman yep
18:09 jimallman (new phylesystem.json is actually smaller than old, so should be faster if anything)
18:09 kcranstn ok
18:10 jimallman lots of minor improvements to Progress page, based on recent feedback
18:10 kcranstn yes, thanks!
18:10 kcranstn can I make one small request before we accept?
18:10 jimallman i think you were right about removing the “pinning” the mouse-over date, i don’t miss it
18:11 kcranstn on the synthesis page, can we put a static link to http://files.opentreeoflife.org/trees/
18:11 kcranstn as a stop gap until we have release pages in guthub
18:11 kcranstn github
18:11 jimallman agreed, i’ll add this
18:11 kcranstn then I think we are (finally) ready to release this!
18:12 kcranstn yay! good work jimallman and pmidford_
18:12 jimallman woot!
18:12 pmidford_ Thanks for your patience and thanks to jim
18:13 jimallman we’ll have a little backstage coordination around synth READMEs and backups, but nothing that should hold up the release
18:13 kcranstn this chart is really depressing, though (no fault of yours!)
18:13 kcranstn more trees, please
18:13 jimallman yeah, flatlined for awhile now
18:14 jimallman ok for me to add a Release Notes section to the synth-release page before we deploy? this could have the usual “no notes found!” message if there are none, or i could omit the entire section...
18:14 jimallman kcranstn: ^
18:15 kcranstn let’s not add the section until we have at least one doc
18:15 jimallman ok, we can use the stopgap link (above) for now, then push all the rest when READMEs are ready.
18:20 kcranstn let me know when you are ready to merge that PR
18:20 kcranstn actually, I might suggest some new text for the top of the cahrt
18:20 kcranstn chart
18:20 kcranstn I’ll put a comment on the PR
18:21 jimallman ok, i’ve added the stopgap text+link, checking for your comment now…
18:25 kcranstn comment added
18:25 kcranstn https://github.com/OpenTreeOfLife/opentree/pull/536
18:26 jimallman got it. this is on the main Progress page, i assume
18:27 jimallman OK to refer to OTT as “OTT” and not “the OTT”?
18:27 kcranstn yes
18:27 kcranstn and yes
18:27 jimallman i can do this now, just takes a minute. i assume we want to keep the existing hyperlinks
18:27 kcranstn yes please
18:28 kcranstn and note that O in OTU = operational, not operating
18:29 jimallman ! noted
18:29 jimallman changing “in various component.” to “in various components.”
18:30 kcranstn yes
18:30 jimallman “curator interface” versus “curation interface”? latter seems more natural to me
18:31 kcranstn ok
18:31 jimallman or “curation tool”, i guess (but now i’m obsessing)
18:32 kcranstn we say “curator application” on the wiki page
18:33 jimallman ok, i’ll follow suit here
18:34 jimallman would you like these to open in new frames/windows? or move the current browser window?
18:34 jimallman i’m torn, we’re prone to window sprawl as it is..
18:34 jimallman easy enough to use the back button without harm
18:34 kcranstn I like same windows when staying on tree.opentreeoflife.org
18:34 kcranstn new window for external
18:35 jimallman ok, pushing final tweaks now
18:35 kcranstn thanks
18:35 kcranstn (any chance to convince people to help curate!)
18:36 * jimallman is pushing to devtree… stand by...
18:36 jimallman https://devtree.opentreeoflife.org/about/progress
18:37 jimallman and here’s the link to synth-release on files.opentreeoflife.org: https://devtree.opentreeoflife.org/about/synthesis-release/v2
18:37 kcranstn yay
18:37 kcranstn to both changes
18:37 jimallman when we deploy to production, we’ll need to make sure the stats files are the same (or newer, based on these)
18:38 kcranstn ready to merge that PR?
18:38 jimallman +1
18:41 jimallman tree-collection PRs are not-quite-ready.. UI needs review, and lists aren’t consistent across all pages where needed.
18:41 jimallman (i’ll hit this over the weekend)
18:42 jimallman but all CRUD operations are working as expected
18:46 jimallman shall we keep going with smaller/newer PRs?
18:47 kcranstn anything that should get deployed sooner than later?
18:48 pmidford_ My changes aren't part of the regular deployment (maybe they need to be worked in somehow)
18:48 jimallman i assume the germinator PRs are only used internally
18:48 jimallman checking josephwb’s now...
18:49 jimallman it looks like this will affect the quality of arguson views in main webapp
18:49 jimallman https://github.com/OpenTreeOfLife/treemachine/pull/190
18:49 jimallman it definitely fixed some problems on devtree
18:50 pmidford_ looking it over now...
18:52 jimallman i don’t see any obvious problems
18:52 pmidford_ nope
18:52 kcranstn ok
18:55 jimallman shall i merge?
18:55 kcranstn ok
18:56 jimallman https://github.com/OpenTreeOfLife/files.opentreeoflife.org/pull/3 is tiny, just another correction to release dates
18:56 kcranstn merging
18:56 jimallman (defers to file modification date, as is jar’s preference)
18:56 jimallman i’ll add placeholder release notes to #29, so hold that one for now
19:00 kcranstn ok
19:00 kcranstn I’ll need to jump off shortly. Contractor coming to look at our foundation
19:00 jimallman ok, i think we can handle all the germinator PRs another time.
19:00 pmidford_ Ok, sounds good.
19:01 jimallman thanks pmidford_ !
19:01 pmidford_ sure, thanks for coordinating everything
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