| --- Log opened Sat Nov 21 00:00:31 2015 | ||
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| archels | .title http://advances.sciencemag.org/content/1/10/e1501136 | 00:38 |
|---|---|---|
| yoleaux | Electronic plants | Science Advances | 00:38 |
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| kanzure | http://gnusha.org/logs/archives/hplusroadmap-2015-11-21.tar.gz af63bce07bf33da0d894edffa5fec5f7481670d58f23665620602c5d5cee8224 | 05:10 |
| kanzure | what's with the file corruption in 2008-03-25.log ? | 05:34 |
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| kanzure | perhaps the data corruption fairies got to that file before i could | 06:33 |
| kanzure | doh, it's a tar file | 06:35 |
| kanzure | nobody has noticed all these years? | 06:35 |
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| kanzure | updating 2010-07-05.log to include 2010-07-05.initial.log, old hash was 01e681a1562a6541ce25b88318c81c68fbf3a70192745f555232fe9294a51417 new hash is 3fba336e9e7dcb42fb4f8e44d0b150c2f53b3184c6bb7e479dbc47751455b96a | 07:12 |
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| kanzure | file *.log reports that some of the logs are "UTF-8 Unicode text, with very long lines" while others are "Python" | 07:35 |
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| kanzure | hplusroadmap-2015-11-21.tar.gz 9fea9fbf68626ce5842b75f12653550f4c8eb7d6a4d668cb805435f9481ada91 not af63bce07bf33da0d894edffa5fec5f7481670d58f23665620602c5d5cee8224 | 07:42 |
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| pasky | my logs start on 2010-10-31 but are quite complete, if you have any gaps | 08:35 |
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| kanzure | .title http://biorxiv.org/content/early/2015/11/20/032417 | 10:33 |
| yoleaux | Genome-wide analysis of over 106,000 individuals identifies 9 neuroticism-associated loci | bioRxiv | 10:33 |
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| kanzure | http://gnusha.org/logs/graphs/300-days-anycolor-heatmap-cropped.png | 11:02 |
| kanzure | image is a heatmap visualization of text mass from 300 days of early hplusroadmap logs (horizontal axis is HH:MM vertical axis is log day) | 11:03 |
| cluckj | neat | 11:03 |
| cluckj | did you/can you do that with specific words? | 11:05 |
| kanzure | can you be more particular? | 11:07 |
| cluckj | like "bitcoin" or "microfluidics" or "FDA"? | 11:09 |
| kanzure | oops i think that was random sort, here is fixed version http://gnusha.org/logs/graphs/300-days-anycolor-heatmap-cropped-sorted.png | 11:10 |
| kanzure | yeah i could do something with particular words, but not sure what strategy to use? | 11:10 |
| kanzure | rate of mention of "microfluidics" is not too high! | 11:10 |
| kanzure | so not sure what visualization to show for that | 11:10 |
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| cluckj | try the same heatmap thing | 11:12 |
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| kanzure | i'm not sure what to do there? you mean set to 0 every line that does not mention "microfluidics"? | 11:14 |
| cluckj | yeah | 11:14 |
| kanzure | that would be basically everything, though | 11:15 |
| cluckj | hmm | 11:15 |
| cluckj | yes? | 11:16 |
| kanzure | so it would just be blue with like 1 red pixel every 20 days or something | 11:16 |
| cluckj | heatmaps are good for finding intersections between things that you haven't noticed before | 11:16 |
| cluckj | so like microfluidics + cheese, or something of that nature | 11:17 |
| kanzure | ok, sounds like you want something like, "same graph structure, but highlight any HH:MM with a special color when a word out of some_list is found" | 11:17 |
| kanzure | but what happens if more than one word is found in same HH:MM segment? | 11:18 |
| kanzure | (from the same list) | 11:18 |
| kanzure | also: why is there so much vertical correlation in this image? | 11:19 |
| kanzure | time-of-day correlation makes sense because some people have a temporally-decided schedule. but i'm not sure that should correlate vertically with line length/text density... | 11:19 |
| cluckj | do HH:MM:SS? | 11:21 |
| fenn | you're probably parsing the time wrong | 11:22 |
| fenn | like it's actually MM:SS being plotted maybe | 11:22 |
| fenn | that would be a really surprising temporal regularity if it were true | 11:23 |
| fenn | "tune in to ##hplusroadmap on the hour every hour" | 11:23 |
| kanzure | there's no :SS data | 11:23 |
| cluckj | haha | 11:23 |
| fenn | or maybe you're parsing 0-60 out of 100 | 11:24 |
| kanzure | out of 100? | 11:25 |
| fenn | it's not regular enough for that, nevermind | 11:25 |
| kanzure | https://gist.github.com/kanzure/110ecb73abc3a9f9c28b | 11:26 |
| fenn | merry textmas | 11:26 |
| cluckj | you mean textmass | 11:28 |
| kanzure | i see ~35 vertical columns at the bottom of that last .png | 11:29 |
| kanzure | kinda hard to count because they sorta blur together. maybe 25-35. | 11:29 |
| kanzure | maybe there's a bias towards 10 minute intervals | 11:29 |
| kanzure | "2:20pm oh boy, this is an especially hplusroadmappy time to send a message" | 11:32 |
| cluckj | could be an artifact of pixel sizing? | 11:34 |
| kanzure | and why are there multiple days in a row where all vertical columns break | 11:34 |
| fenn | shouldn't this be sorted? data.append(some_day.values()) | 11:35 |
| kanzure | some_day is dictionary of HH:MM -> int | 11:36 |
| fenn | sorted by key | 11:36 |
| fenn | dicts are arbitrarily ordered based on whatever python feels like | 11:36 |
| kanzure | applying extra sorting | 11:37 |
| cluckj | oh | 11:38 |
| cluckj | isn't one of the axes a log scale? | 11:38 |
| fenn | no | 11:38 |
| fenn | "log" means the text file | 11:38 |
| cluckj | duh | 11:39 |
| kanzure | old: http://gnusha.org/logs/graphs/300-days-anycolor-heatmap-cropped-sorted.png | 11:39 |
| * cluckj facepalm | 11:39 | |
| kanzure | new: http://gnusha.org/logs/graphs/300-days-anycolor-heatmap-cropped-really-sorted.png | 11:39 |
| fenn | that looks better | 11:39 |
| fenn | see if you can find daylight savings shifts :P | 11:39 |
| kanzure | wasn't able to generate this graph for all 2555 days because computer hates me | 11:40 |
| cluckj | haha | 11:40 |
| cluckj | haha at fenn, not your jerk computer | 11:42 |
| fenn | maybe you should plot pixel brightness on a logarithmic scale, because there are a few walls of text that throw off the entire color scale | 11:42 |
| kanzure | not sure how to do that | 11:43 |
| fenn | plt.pcolor(math.log(data)) ? | 11:44 |
| kanzure | 730 days http://gnusha.org/logs/graphs/hplusroadmap-textmass-heatmap-2013-11-22-to-2015-11-21.png | 11:46 |
| kanzure | math.log ValueError: math domain error | 11:49 |
| kanzure | oh, 0 | 11:50 |
| fenn | um, numpy.log ? | 11:50 |
| kanzure | http://gnusha.org/logs/graphs/hplusroadmap-textmass-heatmap-2013-11-22-to-2015-11-21-logarithmic-color-scale.png | 11:52 |
| fenn | woah | 11:53 |
| fenn | oh it's not one pixel line per day | 11:55 |
| kanzure | matplotlib is weird | 11:56 |
| kanzure | i'm not tied to it | 11:56 |
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| kanzure | updated http://gnusha.org/logs/graphs/textmass.py | 12:01 |
| kanzure | cluckj: any other plotting ideas? | 12:16 |
| cluckj | not specifically | 12:19 |
| cluckj | you might want to do a "times mentioned" search | 12:20 |
| cluckj | like one of those word cloud things | 12:20 |
| kuudes | if you have percentages or similar fractions, I have found it useful to take first succession rule of them which removes 0% and 100% and centers it, and then take logit out of it | 12:21 |
| cluckj | kanzure, what I look for when I do discourse analysis (qualitatively) is intersections of words/concepts that are surprising or unconnected, then try to figure out how they are related to one another | 12:23 |
| cluckj | so if there are a bunch if lines that contain "X" and "Y," but it's not clear how they are related to one another, you have a novel connection that you can explore | 12:23 |
| cluckj | let me see if I can find the map I did for DIYbio | 12:24 |
| cluckj | :( no luck | 12:30 |
| kanzure | maybe i'll do 30-day-wide graph with coloration of which days a term was mentioned. then regenerate graph for a different word to search. but not sure what value to expect from this sorta graph. | 12:36 |
| kuudes | so, that is two years per each minute to a dot? I suppose ##hplusroadmap has drifted to earlier times? and people irc more on summer vacation than they do otherwise and also on winter vacation so I guess there are reasonable amount of students on the channel | 12:40 |
| cluckj | yes | 12:53 |
| kanzure | http://gnusha.org/logs/graphs/hplusroadmap-textmass-heatmap-2008-to-2015-logarithmic-color-scale.png | 12:55 |
| kanzure | fenn: i was thinking of doing a full-read of the logs, but want to do pre-work correctly. | 13:02 |
| kanzure | fenn: in particular i was thinking i should write down all the things i should expect to find, so that when i am done i can fix whatever didn't meet my expectations | 13:03 |
| kanzure | was also thinking of making bookmarks to particular timestamps, or dumping certain kinds of material into certain wiki pages (but i don't know which types to focus on, haven't thought about this yet) | 13:03 |
| kanzure | i could write down signal-noise ratio estimates for different segments of text. or write down weights for whatever tags i bookmark different sections with. | 13:05 |
| kanzure | oh i wanted to write down a "technology index" since we seem to mention stuff that everyone else tends to forget about | 13:07 |
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| cluckj | sorry for not being more of a help | 13:10 |
| kanzure | an index of diagrams and figures from papers we have read (or at least, the diagrams and figures that we have mentioned) would be fun | 13:11 |
| cluckj | I am in deadline hell for a couple weeks | 13:11 |
| cluckj | intro/conclusion/abstract due monday, then by 12/4 the whole thing needs to be immaculately copy edited and turned in | 13:13 |
| kanzure | what happened to being done before defending? | 13:14 |
| cluckj | I was, these are revisions | 13:14 |
| kanzure | brutal | 13:14 |
| cluckj | yeah | 13:15 |
| cluckj | they're "easy" revisions, relatively speaking | 13:15 |
| cluckj | honestly if they had given me anything that I couldn't complete in time to graduate in december, I would have called it quits | 13:16 |
| kanzure | i should also extract a list of recommended scifi | 13:20 |
| kanzure | written summaries? | 13:21 |
| cluckj | I'm doing those right now | 13:24 |
| cluckj | I hadn't updated them for the final draft, so I had to do them over again as part of a new introduction | 13:24 |
| cluckj | luckily for me I had to summarize everything in the defense presentation | 13:25 |
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| cluckj | oh crap I need to copyright and CC license this before then too | 13:33 |
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| kanzure | "So maybe this will lead to open source Jurassic Park style dinosaur code on GitHub that you can write to DNA and breed?" although funny is somewhat sad; programmers are always going to be very disappointed when they learn about biology, i think. | 14:46 |
| kanzure | from https://news.ycombinator.com/item?id=10604522 | 14:46 |
| cluckj | lol | 14:46 |
| cluckj | "wait, synbio is just like legos and programming?? that's so easy" | 14:47 |
| cluckj | the engineering metaphors are goofy and reductive | 14:48 |
| cluckj | but they get people who wouldn't otherwise be interested in biology into it | 14:48 |
| kanzure | yeah but that's a recipe for producing really really angry users | 14:50 |
| kanzure | "WHAT DO YOU MEAN it's nothing like legos?" | 14:50 |
| kanzure | visual phenotype of software is pixel-controllable (sometimes), but by comparison there's no direct 1:1 between genotype and phenotype | 14:51 |
| fenn | the heatmap should have a pixel dimension of 1440x2550ish | 15:00 |
| kanzure | right | 15:05 |
| kanzure | http://gnusha.org/bitcoin-wizards/graphs/bitcoin-wizards-textmass-2014-10-19-to-2015-11-21.png | 15:24 |
| kanzure | the vertical line on the left turns out handy for calibration | 15:24 |
| kanzure | wait.. a blue background doesn't make sense. | 15:27 |
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| kanzure | compare these two: | 16:08 |
| kanzure | http://gnusha.org/logs/graphs/hplusroadmap-textmass-heatmap-2008-to-2015-logarithmic-color-scale.png | 16:08 |
| kanzure | http://gnusha.org/logs/graphs/hplusroadmap-textmass-heatmap-2008-to-2015-pypng.png | 16:08 |
| kanzure | vertical order was flipped for pypng version, but other things seem wrong to me | 16:09 |
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| kuudes | why is there the drift to earlier time? is this because of mismatch in day length, say 1441 minutes per day or something, or is there a real effect? | 16:23 |
| fenn | pypng is 1438 pixels wide and has three bands alternating transparent-gray then clear then transparent-gray which drift down and right 20 degrees, (or just dimming of those pixels?) also the image is sorta but not exactly repeated 3 times in the horizontal direction and the overall dimensions are off by a factor of about 3 (units 7yr 1438*917min = 2.79) | 16:36 |
| fenn | great, and now i am seeing ghostly skull images in the data | 16:38 |
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| kanzure | http://gnusha.org/bitcoin-wizards/graphs/bitcoin-wizards-textmass-2014-10-19-to-2015-11-21-better.png | 16:52 |
| kanzure | http://gnusha.org/logs/graphs/hplusroadmap-textmass-heatmap-2008-to-2015-pypng-better.png | 16:54 |
| kanzure | since andy-logbot is calibrated correctly in the -wizards version i'm gonna guess that the other graph is also correct now | 16:58 |
| fenn | looks right | 17:04 |
| fenn | good work, you are not a "data scientist" | 17:05 |
| fenn | now* | 17:05 |
| fenn | heh | 17:05 |
| kanzure | only true once i can factor out the bias for your 2 week time jumps | 17:09 |
| kanzure | graph would be more useful if i could query by tags and tag scores.. e.g. "microfluidics OR neuroscience" (and have some magic hypernym stuff going on in the background thanks to the glorious wordnet) and then color by cumulative score. | 17:13 |
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| cluckj | yes | 17:17 |
| cluckj | that might give you some interesting intersections of topics | 17:17 |
| kanzure | http://diyhpl.us/~bryan/irc/extropians/irclogs/lesswrong-irc-logs-textmass-2010-09-10-to-2015-09-21.png | 17:23 |
| cluckj | I'm seeing a ghastly ayn rand face there | 17:24 |
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| kanzure | i think that last one is more accurately described as a graph of freenode downtime | 17:31 |
| cluckj | almost at 2000 words for the day | 17:39 |
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| kanzure | oops wrong filename | 17:43 |
| kanzure | http://diyhpl.us/~bryan/irc/extropians/irclogs/lesswrong-irc-logs-textmass-2010-09-10-to-2015-11-21.png | 17:43 |
| kanzure | http://diyhpl.us/~bryan/irc/irc-log-graphs/electronics-irc-logs-textmass-2010-08-03-to-2015-11-21.png | 17:44 |
| kanzure | http://diyhpl.us/~bryan/irc/irc-log-graphs/reprap-irc-logs-textmass-2010-08-03-to-2015-11-21.png | 17:47 |
| kanzure | heh reprap logs are larger than python, javascript, nodejs, linux, electronics, jqurey, rubyonrails, git, bitcoin logs. (lesswrong comes in behind dogecoin and bitcoin logs.) | 17:52 |
| kanzure | http://diyhpl.us/~bryan/irc/irc-log-graphs/bitcoin-irc-logs-textmass-2010-11-16-to-2015-11-21.log | 17:59 |
| kanzure | http://diyhpl.us/~bryan/irc/irc-log-graphs/bitcoin-dev-irc-logs-textmass-2013-03-12-to-2015-11-21.png | 18:01 |
| kanzure | http://diyhpl.us/~bryan/irc/irc-log-graphs/swhack-irc-logs-textmass-2013-01-15-to-2015-11-21.png | 18:11 |
| kanzure | swhack visualization is somewhat unique | 18:11 |
| kanzure | ugh i should do this for email | 18:20 |
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| drethelin | kanzure are there any good transfection forums out there | 18:45 |
| drethelin | that it would be usefull for me to make a post on advertising fugene | 18:45 |
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| kanzure | protocol-online? but really, adwords dude | 19:00 |
| kanzure | adsense i mean | 19:00 |
| drethelin | yeah I know | 19:02 |
| drethelin | dad is being weird about wanting to try various things before that | 19:02 |
| drethelin | http://www.protocol-online.org/forums/topic/35058-free-samples-of-fugene-hd/ | 19:03 |
| kanzure | find some magic articles on hubspot, pick a few things to show him | 19:03 |
| kanzure | lifecycle drip-line emails, stuff about funnels, evergreen content, the usual.... | 19:04 |
| kanzure | tell him to do a deal with indiebio, genspace, biotechnbeyond, counter culture labs, etc. | 19:07 |
| kanzure | or p212121 | 19:07 |
| drethelin | he wants to try to do some stuff with competitor URLs first | 19:07 |
| drethelin | but he told me I could post to forums :/ | 19:08 |
| kanzure | absolutely nothing beats a good marketing funnel | 19:08 |
| drethelin | sure | 19:10 |
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