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RedDemon1970 has joined #arpnetworks RedDemon1970: hello
can somebody help me, i'm trying to install openbsd..but i cant conect to my host for downloading true ftp ***: heavysixer has quit IRC (Quit: heavysixer) toddf: RedDemon1970: have you mailed a pubkey to support@arpnetworks.com ?
ssh pubkey RedDemon1970: a what. a pubkey? DaCa: :) ***: visinin has joined #arpnetworks toddf: then you can hit the ssh console to reset your vm or hit serial console etc RedDemon1970: ah k toddf: you also should be able to see the settings on your portal to hit the vnc port for your vm as well ***: vtoms has quit IRC (Quit: Leaving.)
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RedDemon1970 has joined #arpnetworks RedDemon1970: hello bob^^: hi ***: vtoms has quit IRC (Ping timeout: 248 seconds)
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ChanServ sets mode: +o ballen ballen: ping mike-burns: Pong. ballen: hows it going mike-burns: Not bad; excited to go back to work after the long weekend. ballen: yea same
minus the excited mike-burns: Ah, that's too bad. ballen: not lamenting it or anything mike-burns: I do wish I could skip work and hack on this GNOME applet I've been writing, but programming in Ruby all day is A+ too. ballen: heh right on
I need to hack through a bunch of crap perl that isn't mine to take care of
just so my users can be migrated off some old servers mike-burns: When I wrote Perl we treated it as a "write-only language"; we'd never modify it but instead re-write anything instead. ballen: heh mike-burns: "Oh, there's a bug somewhere in foo.pl? Let's re-write it!" ballen: yea good plan mike-burns: Yeah well the company went out of business. ballen: don't have the time, nor the biology background to do that with these
lmao mike-burns: Ah, Perl is super popular in bioinfomatics, etc. I remember that during my last year as a Perl hacker. ballen: yea, the problem is
you have these scientist
that do the programming
they've only taken minimum programming classes if any
or are self-taught mike-burns: Heh, the classic problem. ballen: as such... in this case, their scripts are un-portable as hell mike-burns: I've taken care to teach my engineer girlfriend decent programming skills for when she sometimes needs to write the MATLAB or whatever script. ballen: and of course the one guy that could fix it, doesn't have time because hes a team lead and doing SCIENCE jeev: i wish i could code. -: mike-burns pictures SCIENCE as green liquids in tubes being poured into each other. ballen: usually not green
in our case
rather little samples of DNA or rDNA
that you put in some machine that reads said DNS or rDNA
DNA*
the overall issue being said machines only read a certain amount of pairs of chromosomes mike-burns: It still seems magical to me, after 10 years of programming, that software can read from weird hardware. Like the Perl that reads DNA, or the MATLAB that reads lasers. ballen: yea its pretty interesting
perl and DNA is almost all string manipulation mike-burns: Yeah, that's also crazy to me. ballen: and pattern recognition mike-burns: I suppose it makes total sense to use Perl for that, but I don't know which came first: using Perl for that, or it making total sense. ballen: using Perl mike-burns: Heh, noted. ballen: I know alot of people are using Python these days for this mike-burns: Oh yeah, there's some book out there that teaches DNA processing and coindicentally teaches Python along the way. ballen: yea
then there is a number of utilities that produce some sort of data from the reads mike-burns: Yeah those are crucial. ballen: then using all of that automated data creation, a person stands at the very end of the "pipeline"
and tries to put it all together
into a full genome
and the person is the biggest bottleneck
but the "finishing" is still a bit of a black magic mike-burns: Yeah, still needs actual intelligence in there somewhere. ballen: yea and the weird thing is we aren't putting a lot of dev time into automating that persons work
we just add more people mike-burns: Well automating that person's work would leave that person without a job.
They certainly don't want that. ballen: true
can't imagine that job is very rewarding
just assembly factory work mike-burns: A bunch of years back I had to build (in Perl) a communication layer between the mainframe and the Web server software used by a major college, because if we moved to Postgres the mainframe guy would be out of a job. ballen: should be doing SCIENCE
hah mike-burns: Programming is funny when politics gets involved. ballen: indeed mike-burns: Debian can't ship OpenSSL because of politics, and this strikes me as strange every time I re-discover it. ballen: heh which politics is that?
them breaking it a while back? mike-burns: 4-clause BSD license. ballen: ah
yea mike-burns: You have to add the non-free repo to get both OpenSSL and unrar. ballen: heh thats silly mike-burns: To us BSD guys, it certainly is. ***: visinin has joined #arpnetworks ballen: thats why I'm a fan of the BSD's
love that we can have ZFS mike-burns: There's no doubt that the BSDs are better OSes, for both political and technical reasons. ballen: indeed, agreed mike-burns: But, Linux has features, which is one thing *BSD is missing. It's why I now run Debian on my laptop.
Sad days. ballen: sad face visinin: linux is still killing it on the multimedia tip :( mike-burns: Exactly. ballen: yes, and the damn bio community when dev'ing open source apps will write to linux not all platforms
some will work on Solaris
depending where the work comes out of visinin: i'm honestly considering a switch from linux to a dual-boot win7/freebsd or win7/openbsd setup though ballen: there ya go visinin: because it's not like linux does multimedia particularly well ballen: I do Mac OS X with a Win 7 or Win XP VM visinin: it's just passable
yeah man ballen: at least for my desktop/laptops mike-burns: visinin: I'd recommend FreeBSD as your introductory BSD. Not that OpenBSD is bad, but FreeBSD has more desktop features. visinin: mike-burns: noted. i've run openbsd before, in fact, and got my feet pretty wet. i'm still a bit of a freebsd noob.
but ULE looks crazy ballen: the new scheduler ? visinin: yeah ballen: why crazy visinin: well, i've been hearing that it does a particularly good job for desktop workloads
linux's CFS has had a lot of problems in that domain ballen: ah yea
seems to work pretty good visinin: so many that ck wrote *another* new scheduler recently, BFS
oh, while i'm talking about it
would you recommend i install win7 or freebsd first?
i'm thinking freebsd ballen: I know I'm running a MySQL instance for a Zabbix monitoring service (also running on the same server) doing roughly 90-100 writes a sec
at like .1 load mike-burns: visinin: For dual-boot, typically you install Windows first, then the other OSes. ballen: yea visinin: gotcha, thanks oinc: noone talked about NetBSD ballen: meh mike-burns: We're not academics! oinc: heh visinin: i'd like to play with netbsd ballen: very minimal visinin: but not necessarily as a primary OS ballen: good choice if you want BSD + Xen oinc: pkgsrc got my head hurting
ballen: thats why I wanted to give it a try ballen: right on
I primarily use ESXi + FreeBSD oinc: Disk performance any good? ballen: seems to be fine
just using local raid 5 and near line 7.2k sas drives visinin: oh hm
anybody know offhand how freebsd plays with ntfs? ballen: hah visinin: or, alternately, how windows plays with ffs? ballen: actually no idea
ffs == ufs btw visinin: ufs, noted ballen: maybe some drivers for winders
looks like you can use Fuse in FreeBSD
and as a result ntfs-3g
http://www.freebsd.org/cgi/cvsweb.cgi/ports/sysutils/fusefs-ntfs/ visinin: well, bless my nippers! mike-burns: That's quite the expression. ballen: indeed
mike suggestions on Ruby full-text search solutions
? mike-burns: Er, I don't know. I hear good things about Sphinx. We typically throw mySQL full text at it until we need something more. ballen: yea
currently I have data stored in Redis
rather not have to have duplicate data
i.e. redis + Sphinx
http://github.com/nateware/redis-textsearch
looks promising mike-burns: One of our clients uses MarkLogic, which may or may not solve your issue. (What I know of it is: pain in the ass, not worth it.) ballen: mmk
ew XML Server
not a fan of XML mike-burns: Oh that redis-textsearch looks promising, according the README. ballen: yea
currently using http://ohm.keyvalue.org/ and Redis
not a bad combo mike-burns: Nice, nice. ballen: hmm
its splitting up data quite a bit to search via a key/value db
will ballon data usage a lot mike-burns: Full-text search is a hard problem; not sure that it's been solved for key/value stores. ballen: so looks like they're splitting up the phrase
for each word
they add it to an index
an index for each field, so "title", "tags" ,etc
somehow, it has to be associated with the ID of the object in the index
as thats whats being resulted ***: ballen has quit IRC (Ping timeout: 252 seconds)
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