Perl 6 - the future is here, just unevenly distributed

IRC log for #opentreeoflife, 2014-09-29

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All times shown according to UTC.

Time Nick Message
00:03 towodo joined #opentreeoflife
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00:09 jimallman towodo: i’ll be around tonight, off and on, if you need another pair of eyes
00:10 josephwb joined #opentreeoflife
00:10 towodo I think it’s done.  try it out
00:10 towodo I updated in place so it was just two commands
00:18 towodo joined #opentreeoflife
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03:21 jimallman towodo: i’ve been bouncing around on tree and devtree, and so far everything looks good.
03:22 * jimallman realizes towodo is not here, hoping he’ll check the logs
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03:43 travis-ci [travis-ci] OpenTreeOfLife/phylesystem-api#630 (add-missing-requirements - 4848936 : Jim Allman): The build passed.
03:43 travis-ci [travis-ci] Change view : https://github.com/OpenTreeOfLife/phylesystem-api/commit/48489361480f
03:43 travis-ci [travis-ci] Build details : http://travis-ci.org/OpenTreeOfLife/phylesystem-api/builds/36529319
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13:50 travis-ci [travis-ci] OpenTreeOfLife/phylesystem-api#632 (master - b1f23fb : Jonathan A Rees): The build passed.
13:50 travis-ci [travis-ci] Change view : https://github.com/OpenTreeOfLife/phylesystem-api/compare/b26895515a40...b1f23fb85243
13:50 travis-ci [travis-ci] Build details : http://travis-ci.org/OpenTreeOfLife/phylesystem-api/builds/36563739
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16:12 kcranstn hey jimallman - you there?
16:35 jimallman kcranstn: hi, here now (grabbed some lunch)
16:36 kcranstn looking at the number of issues on the opentree repo, and thinking that we might want to organize these into milestones to help prioritize
16:36 jimallman ok. is this a good time?
16:36 kcranstn nope ;)
16:36 kcranstn have meetings at 1, 2 and 3
16:37 kcranstn maybe tomorrow?
16:37 jimallman sure. i’ll review these today, with an eye toward the ones marked as ‘bug’
16:37 jimallman i can meet any time tomorrow.
16:38 jimallman (hangout is best)
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18:09 josephwb Couldn't join hangout; full.
18:09 kcranstn you and stephen?
18:09 kcranstn or just you?
18:09 josephwb yes
18:10 kcranstn ok, try now
18:10 kcranstn jonathan just left
18:10 josephwb stephen had a student; just left, so i imagine he is locked out as well
18:11 kcranstn progress report?
18:11 kcranstn we are all waiting...
18:11 kcranstn you and stephen should probably share a connection
18:11 josephwb kcrantn: stephen suggests using skype?
18:11 kcranstn we are all already on hangout, though
18:11 kcranstn can you still not connect?
18:11 josephwb limit of 10, right?
18:12 kcranstn 15
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18:12 josephwb stephen is trying again
18:12 kcranstn there are only 8 of us right now
18:12 josephwb why was it "full" then?
18:13 kcranstn a few people dropped
18:13 josephwb ok
18:14 josephwb nope, full
18:14 josephwb i thin kthe limit is 10
18:14 kcranstn looks like it
18:14 kcranstn can you not share with stephen?
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20:24 josephwb you there towodo?
20:24 towodo sort of
20:24 josephwb did you figure out how to get rid of "You are using an unsupported Java runtime."?
20:25 josephwb i see you removed JAVA_HOME from things, is why i ask
20:25 towodo I figured out that it is completely benign
20:25 towodo JAVA_HOME has nothing to do with it AFAIK
20:25 josephwb yes, but annoying
20:25 towodo we could build a private version of neo4j
20:25 josephwb i didn't have it b4 movning to debian...
20:26 josephwb moving
20:26 towodo (kidding.  we could but it would be a Bad Idea)
20:26 towodo maybe you were running the ‘right’ version of java
20:26 josephwb i believe i am
20:27 towodo no, I mean maybe before moving to debian you were running a version of java that neo4j liked, and after you weren't
20:27 towodo we could install the older version of java I suppose
20:27 josephwb i am using openjdk instead of oracle. i think i was using that before.
20:27 josephwb not a big deal, just wondering if you figured out how to quiet that
20:28 towodo well, like I say, you either modify the part of neo4j that complains, or you switch to a java that it likes better
20:28 towodo or you capture and filter the output… also a Bad Idea
20:30 josephwb "screen" is not installed by default on debian?!?
20:30 josephwb *thinks to self*
20:31 towodo a lot of things aren’t there by default… lean and mean
20:31 towodo I’ve been installing things as needed
20:31 towodo weird, google maps has gone south just when I need it
20:34 towodo kcranstn, I think I’m going to bail on TDWG
20:34 kcranstn ok
20:35 towodo transportation is proving very complicated and my heart isn’t in it… if I were psyched to go I’d do it, but.
20:35 kcranstn it is rather complicated
20:35 towodo bus, walk, bus, walk, bus, walk, bus
20:35 josephwb left #opentreeoflife
20:36 kcranstn RDU - BOS - AMS - ARN - bus
20:36 kcranstn you were planning to walk + bus to Jonkoping?
20:36 jimallman quick question: is someone deploying weirdness to devapi? it’s hanging up for me..
20:37 towodo I was looking at gothenburg to jonkoping and CPH to jonkoping, then asked for ARN to J. and google maps crapped out
20:37 towodo I haven’t touched devapi today, but I did refresh it over the weekend
20:37 jimallman ok, thanks.
20:38 towodo hmm, cody deployed a taxomachine plugin in the middle of my work
20:38 towodo what’s failing, kcranstn?
20:39 kcranstn failing?
20:39 kcranstn did I say something was failing?
20:40 towodo I’m puzzled now because I only see one neo4j running
20:40 towodo and there’s a weird java process I don’t understand
20:41 towodo germinator/test.sh devapi   sure doesn’t work
20:41 towodo and it worked yesterday
20:42 towodo so, indeed, there is something wrong on devapi.
20:43 towodo api is failing too, in the same way
20:43 towodo aster as well.  how bizarre.
20:43 towodo maybe it’s because no more JAVA_HOME ?
20:45 towodo I don’t think so… wonder what could have happened between yesterday and today…
20:47 towodo oops, gave wrong arg to test.sh.
20:47 towodo need fqdn
20:48 towodo api.opentreeoflife.org is fine, as is aster.
20:48 towodo treemachine seems to be down on devapi. looking at neo4j console log
20:49 towodo OpenJDK 64-Bit Server VM warning: INFO: os::commit_memory(0x00007fc3f2d8d000, 65536, 1) failed; error='Cannot allocate memory' (errno=12)
20:51 towodo # There is insufficient memory for the Java Runtime Environment to continue.
20:51 towodo # Native memory allocation (malloc) failed to allocate 65536 bytes for committing reserved memory.
20:51 towodo # Possible reasons:
20:51 towodo #   The system is out of physical RAM or swap space
20:51 towodo #   In 32 bit mode, the process size limit was hit
20:54 towodo kcranstn, I need to go pick up my daughter.  will investigate further tonight.  in the meantime use api
20:54 kcranstn ok
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21:44 jimallman fyi, i’ve restarted neo4j-treemachine on devapi, and it’s behaving normally again. It’s *possible* that i caused its earlier out-of-memory failure by requesting a large subtree in the tree-viewer app.
21:46 jimallman the detailed error log for that incident is still available at ot10:/home/opentree/neo4j-treemachine/hs_err_pid24518.log

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