Perl 6 - the future is here, just unevenly distributed

IRC log for #opentreeoflife, 2015-02-03

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All times shown according to UTC.

Time Nick Message
02:21 kcranstn joined #opentreeoflife
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14:31 mtholder easy fix available for 157 and 158, but not https://github.com/OpenTreeOfLife/treemachine/issues/159
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15:59 josephwb you there mtholder?
16:00 josephwb stephen found a typo in one of your tests: https://github.com/OpenTreeOfLife/treemachine/blob/avoid-trivial-conf/test-synth/nontrivialaugmenting/README.md
16:06 josephwb crap. i think i screwed something up there...
16:12 josephwb updated that README
16:15 mtholder joined #opentreeoflife
16:16 mtholder josephwb, I'm back. So your note and fix. thatnks.
16:17 josephwb the delivered result is not expected. i suspect because none of the sources reach the root.
16:18 josephwb to the whiteboard!
16:18 mtholder tree1 and tree2 both have edges to the root
16:19 mtholder I think my comment in https://github.com/OpenTreeOfLife/treemachine/issues/159 is correct. sorry 'bout the err in the readme.
16:25 josephwb mtholder: i don't know what you mean. neither tree has all taxa, so cannot reach/ be compatible with the root.
16:25 mtholder I just meant that they connect ot the root.
16:25 mtholder the taxanomy has all taxa
16:25 josephwb yes
16:26 josephwb and that is all the root sees when beginning synthesis.
16:26 mtholder no.
16:26 mtholder look in the neo4j browser
16:26 josephwb that's up next.
16:26 mtholder or synth log. it gets to node 10 before it makes a mistake, I think.
16:26 josephwb drawing it on the whiteboard first.
16:33 mtholder josephwb, do you know what tool SAS uses to generate the graph image that he posted in one of those issues?
16:33 josephwb do you have a link?
16:33 kcranstn in the notes for today’s meeting
16:33 josephwb so many emails!
16:33 josephwb checking now
16:33 mtholder https://github.com/OpenTreeOfLife/treemachine/issues/157
16:33 kcranstn or there
16:34 kcranstn the one in the doc has node and edge labels
16:34 mtholder ah better.
16:34 mtholder thanks
16:34 kcranstn https://docs.google.com/document/d/1bw_ePrR1j7dhou-V4Q6HYJbmzFE-Z6aPGBtK7L5tGeU/edit
16:34 josephwb nope. don't know.
16:34 mtholder the "jsgol" command crashes for me. I can get the graphml. so maybe it is a graphml viewer.
16:35 josephwb looks custom to me.
16:35 josephwb we use gephi, but this is not gephi
16:35 josephwb some d3 thing stephen must have whipped up.
16:58 josephwb just talked to stephen. he did it by hand.
16:59 kcranstn he is awfully good with a crayon ;)
17:15 jar286 jimallman, the answer is yes, we want to do this before June
17:15 jimallman thanks!
17:24 jar286 jimallman, new issues added for collections, and milestone Canberra Day
17:24 jimallman yes, i see them (thanks)
17:37 jimallman mtholder: we should talk about whether/how to beef up the servers before load testing.
17:37 kcranstn yes
17:38 jar286 many possibilities.  many involve $ so we should look at HW budget
17:38 kcranstn *runs off to check AWS budget*
17:39 mtholder I've gotta run. back later.
17:41 jar286 our biggest hardware cost is OTI ...
17:42 jar286 3.6g resident set
17:42 jar286 (maybe it needs to be reinitialized)
17:42 kcranstn plenty left in AWS budget
17:42 kcranstn i.e. only spent about half of budgeted
17:42 jar286 do, we could double the burn rate no problem?
17:42 jar286 s/do/so/
17:45 kcranstn let’s hammer out the specifics of “double the burn rate”, but yes, I think so
17:45 jar286 ok… will consider that a rough tentative guideline…
17:46 kcranstn are we ok with sharing the aws cost numbers?
17:46 kcranstn I’ll put the script into github
17:46 jar286 not on IRC I wouldn’t think
17:46 kcranstn our actual usage?
17:47 kcranstn that doesn’t need to be private
17:47 kcranstn i.e. cost / month
17:47 jar286 up to you. can’t think why it needs to be private other than general caution
17:48 jar286 whole earth review used to publish their budget and costs in detail
17:49 kcranstn https://github.com/WhiteHouse/2016-budget-data
17:50 jar286 amazing
17:51 kcranstn do we have a list of current servers?
17:52 jar286 AWS will give a list, you mean what they’re used for?
17:52 jar286 we do have a list, I’ll find it…
17:52 kcranstn Just wanted to put some background info in the readme
17:52 kcranstn how many machines, etc
17:53 jar286 https://github.com/OpenTreeOfLife/deployed-systems/blob/master/opentree-servers.txt
17:53 jar286 but it needs updating
17:53 kcranstn thanks, I’ll add that link
17:57 jar286 updated
17:58 kcranstn https://github.com/kcranston/OpenTree_AWS_costs
17:58 kcranstn (put it in my account, but could fork / transfer)
18:03 jar286 OK, and if I remember the budget correctly, we certainly do have a surplus. Maybe time to split up and maybe replicate some of the back end stuff.
18:31 pmidford2 jar286 - ready when you are
18:31 jar286 5 mins, will hangout you
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