IRC log for #brlcad on 20070801

00:09.57 brlcad poolio: yes, profile (gprof), valgrind, write isolated unit test cases (that just test ONE function), and then polish your code
00:10.34 brlcad those four steps should reveal at least a few issues if not many (particularly the isolated unit tests and valgrind)
00:14.42 poolio Well, I don't think there is really an issue. I can't see anything is wrong. Speed is something that I could look at with profiling, but as far as I can see it's working fine, the algorithm just isn't doing too great
00:15.02 brlcad it's not to find an issues, that's just due diligence on any code
00:15.28 poolio Wait, so you're saying I should profile anyway?
00:15.37 brlcad all code could ideally have all four of those cases written.. and they very OFTEN do uncover entirely unexpected issues
00:15.41 brlcad yep
00:15.51 poolio alright. I'll get on that.
00:16.58 brlcad plus it's just good a exercise to get proficient in, particularly if you've never done it
00:17.24 brlcad the configure option --enable-profile will turn on the gprof profile flag
00:17.42 brlcad use that with debugging symbols enabled
00:18.21 brlcad then run gprof and your program name in the dir with the gmon.out log and it'll generate a report -- see the web for some tutorials, manpage for docs, etc .. there are a lot of options
00:18.52 brlcad undoubtedly, it will be spending a ton of time in the ray evaluation routines as you're very much cpu-bound, but there could be some surprises
00:18.57 poolio alrighty. there's still some code clean up that I may do first, but that sounds good.
00:19.20 brlcad i'd suggest running valgrind before doing gprof
00:19.27 poolio but I mean shouldn't I still be going for getting better results out of the GA?
00:19.46 brlcad this will be a good "breather" for a day or two :)
00:19.49 poolio brlcad: yeah the issue with valgrind is it seperates the reports with each thread
00:20.00 poolio heh, dont have time for a breather :)
00:20.05 brlcad so run it single threaded first :)
00:20.34 brlcad there's a few things it'll likely report in librt itself that don't clean up on exit, and those are known/can be ignored
00:20.53 poolio k
00:21.11 brlcad otherwise it should be nearly a clean/empty report
00:22.09 brlcad there should be zero "definitely lost" leaks
00:22.21 brlcad even in system libs
00:23.49 poolio ==14776== ERROR SUMMARY: 0 errors from 0 contexts (suppressed: 17 from 1)
00:37.24 ``Erik what's left on the 7.10.2 checklist, yo?
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01:19.12 louipc is there a point where you'll check that it builds nicely before release?
01:20.29 louipc I'd like to check if it works on archlinux, last time it didn't work so I didn't update the pkg. I didn't feel like patching it from heh. :/
01:47.59 poolio brlcad: I don't think my timer is fast enough...?
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09:34.20 Laniakea msg -lugs tarzeau do you wear contact lenses?
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10:01.43 Laniakea omg
10:11.55 poolio morning?
10:11.56 tarzeau Laniakea: sometimes?
10:12.03 tarzeau Laniakea: you got an irc problem?
10:13.53 Laniakea tarzeau: no I left out the /
10:14.17 Laniakea tarzeau: see query
10:14.22 Laniakea (on lugs)
10:26.00 Laniakea tarzeau: do you see my query? You are not responding
10:26.12 tarzeau wait
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13:37.01 ``Erik louipc: the last step before release is to take the candidate tarball to a slew of os/arch combos and make sure it compiles, runs benchmark, and does a fistful of things in mged... which I *THINK* is what brlcad is sorta doing now
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14:27.06 CIA-29 BRL-CAD: 03erikgreenwald * 10brlcad/src/libtclcad/ (Makefile.am tkCanvBezier.c): actually remove tkCanvBezier.c as it's no longer used
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15:57.48 poolio brlcad: is there a way to identify what data structure is eating away at the memory?
15:58.05 poolio Like I know I have a memory leak somewhere I'm just having a hard time finding it by hand
16:02.17 brlcad depends on the nature of the leak -- if it is a true leak, valgrind should have found it
16:03.04 brlcad what was the rest of valgrind's report -- errors aren't the only part
16:05.14 poolio memcheck whines about stuff internal to librt
16:05.45 poolio Oh woah, it changed since the last time I ran it
16:06.30 poolio hmm. I have a bunch of definitely lost bytes :\
16:15.56 ``Erik if valgrind and boehm don't find them, they're still reachable by something in the frame stack
16:16.57 poolio well valgrind found some
16:17.03 poolio but it doesn't make senes
16:17.04 poolio e
16:19.37 poolio ``Erik: http://rafb.net/p/eCHfmb31.html
16:20.26 brlcad might not make sense but i've yet to see valgrid be wrong :)
16:20.26 poolio It's saying that rt_init_resource is leaking, but I rt_clean the resources for sure...
16:20.58 poolio Yeah yeah
16:20.58 brlcad that one is known
16:21.08 poolio alright, so that's all normal?
16:21.10 brlcad the ptbl ones can be ignored
16:21.39 brlcad there is no counterpart to rt_init_resource
16:21.47 brlcad so items it allocated are never freed
16:21.56 poolio Well that's a big issue
16:22.09 poolio Because I re-allocate resources every time I raytrace a new individual
16:22.25 poolio what about rt_clean_resource() ?
16:22.34 brlcad that should be fine, it releases if you call init again
16:22.53 poolio so I don't need to run rt_clean_resources() ?
16:23.50 brlcad no, you should
16:24.31 poolio Ok, and what about the rt_gettree one?
16:24.58 brlcad there could be a leak in rt_clean_resources(), I'll look into it
16:25.07 brlcad that's one that shouldn't be there
16:25.36 poolio I'm calling it so much, the leaks just get bigger and bigger
16:25.48 brlcad you've not freed the item from rt_gettree() I believe
16:27.29 poolio Well, I rt_gettree() into some rtip, and I rt_free_rti() that rtip. So shouldn't that take care of it?
16:28.23 poolio brlcad: and this? http://rafb.net/p/vhqFb112.html
16:28.50 brlcad now that's a huge leak
16:28.56 poolio shouldn't rt_free_rti() take care of that too?
16:29.52 poolio I feel like there's something I need to do with the rtip besides rt_free_rti()
16:29.58 brlcad in general, no -- rt_free_rti only free's the rti itself, not objects the rti holds
16:30.16 brlcad as there can be multiple instances and other issues at play
16:31.01 poolio ah alright. So I need to somehow free the structures rt_gettree() creates as well as rt_prep() ?
16:32.42 brlcad don't know for sure for these two cases, so I'm looking -- you take the big one, i'll take the little one :)
16:33.38 poolio alrighty
16:33.42 brlcad it could be a librt leak with certain calling order or some free not being called that your code needs to be doing, hard to say without tracing the leak
16:34.11 brlcad make no assumptions, just follow the memory and read the code that relates to it
16:34.25 poolio k
16:37.23 brlcad er, are you used CVS head?
16:37.34 poolio yeah
16:37.39 brlcad hmm.. my line numbers aren't matching yours
16:37.56 poolio Hmm, haven't updated for a little while
16:38.06 poolio guess I can do that
16:38.30 brlcad let me know if db_tree.c updates
16:40.12 brlcad louipc: I've got clean builds so feel free to test and let me know if you have build issues on your end
16:41.03 brlcad ``Erik: i've not got a solaris on hand if you want to test them out
16:41.31 poolio brlcad: yeah it changed
16:41.52 poolio brlcad: Ah, I think it's that I hadn't updated since you changed the copyright comments last week
16:42.06 brlcad ahh, okay
16:42.15 brlcad that sounds about right offset-wise
16:42.27 brlcad new report would be good to see
16:43.40 poolio ah wait
16:43.46 poolio I need to recompile dont I
16:47.29 CIA-29 BRL-CAD: 03poolio * 10brlcad/src/gtools/beset/ (fitness.c population.c population.h): more mutation support and cosmetics
16:47.59 brlcad yup
16:48.31 poolio this is gonna take a while :)
16:51.27 poolio grargh what did I break?
16:51.28 poolio make: *** No rule to make target `m4/restore.m4', needed by `Makefile.in'. Stop.
16:59.02 poolio fixed.
16:59.12 poolio brlcad: even with rt_clean() I get the memory leaks
16:59.45 poolio Which doesn' tmake sense, it looks like rt_clean() frees _all_ the dynamic structures inside of the rtip.
17:03.08 Maloeran Valgrind, boehm... Personally, I found that the best tool to investigate memory leaks is a wrapper around malloc/free/realloc
17:05.15 Maloeran BRL-CAD of course has an interface on top of these, but I haven't looked if it can be used to trace leaks
17:08.56 Maloeran ( The pseudo-function to get addresses of calling functions, useful for such debugging, is a GCC extension though )
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17:20.46 ``Erik boehm is a wrapper that stubs in place of malloc/free/realloc/calloc
17:24.04 brlcad libbu does have it's own memory bounds checking that works pretty well
17:24.41 ``Erik bounds, yes, but does it retain alloc lists and look for 'forgotten' bits?
17:25.09 brlcad i tend to prefer valgrind's even over the *alloc/free wrappers though as it generally does a much better job and often detects things that other approaches won't/can't
17:25.49 ``Erik valgrind seems pretty married to leenewx, though
17:26.00 ``Erik efence, boehm, ccmalloc, dmalloc... those're pretty portable
17:28.43 brlcad sushi:~/brlcad morrison$ ./a.out 300120 malloc 20 alloc 300128 free free
17:28.46 brlcad ERROR bu_free(x300128, free) pointer bad, or not allocated with bu_malloc! Ignored.
17:29.27 ``Erik ah, so bu keeps its own malloc info ontop of the system malloc info
17:29.39 ``Erik *ponder*
17:30.01 ``Erik free(bu_malloc()-bumallocstructsize); hehehehe
17:30.13 brlcad http://pastebin.bzflag.bz/m2661afe4
17:31.50 ``Erik <-- gonna build sunos 5.8 using gnu toolchain first, then if that works, try sunwpro
17:32.06 brlcad sounds good, what I usually do too
17:32.26 brlcad cause if sunwpro doesn't work, not a big deal .. so long as one of the two does easily
17:33.03 brlcad and if it just requires a few tweaks, it can always be annotated in doc/README.Solaris
17:34.27 IriX64 http://www3.sympatico.ca/mario.dulisse2/castle.png
17:34.30 IriX64 :)
17:34.57 ``Erik now back in the day, it was a beefy machine... I must be gettin' spoiled, dual 450mhz usparcIIi just seems sssssooooooo ssssssllllllooooooowwwwwwww
17:35.01 brlcad the reason valgrind tends to do better than the wrappers is why it's (unfortunately) linux-specific .. performance counters and other low-level issue
17:35.09 ``Erik *nod*
17:35.13 ``Erik um
17:35.19 ``Erik there's one in chud, right?
17:35.27 ``Erik not bigtop, um, ... hrm, not saturn I don't think
17:35.30 brlcad yeah, it's not too shabby either
17:35.39 ``Erik the frankenstein one?
17:35.44 brlcad yeah, something like that
17:35.48 brlcad two of them actually
17:35.54 brlcad one that watches cocoa memory allocations
17:36.00 brlcad another that watches all allocations
17:36.02 ``Erik <-- has used shark and the ogl profiler, not the others really
17:36.11 ``Erik and shark usually from the command line
17:36.17 brlcad i've only used it a couple times to notice that it was pretty cool
17:36.28 brlcad shark from the command line .. o.O
17:36.30 ``Erik shark -i ./myprog ; open *mshark
17:36.36 brlcad ah, heh
17:37.11 poolio brlcad: any luck?
17:37.41 brlcad poolio: was waiting on the new report, or did I miss it?
17:37.52 poolio hehe, it's on the way, one sec
17:37.55 brlcad so line numbers match up
17:37.59 poolio yeah sorry
17:38.07 poolio make just finished :\
17:38.09 brlcad pretty sure I see the offsets, but I'd rather not guess
17:41.19 poolio rawr! I set the wrong prefix and now I have to rebuild. d'oh
17:42.04 brlcad hehe
17:42.09 brlcad you don't have to install
17:42.16 brlcad you can run in place
17:42.42 brlcad just have to be sure to wrap correctly so it doesn't pick up installed libs
17:44.09 poolio yeah but I already uninstalled previous
17:44.18 poolio and I'd like to have it installed
17:44.28 poolio so I'll just do some more code clea up
17:45.45 brlcad gah, silly system doesn't have a functional 64-bit libX11, but *does* have functional 64-bit libGL
17:45.56 brlcad that's really fscked up
17:46.53 ``Erik O.o
17:46.54 poolio can 64bit libGL even function without a 64bit X11?
17:47.09 ``Erik if it has another display path, sure
17:52.09 ``Erik hah
17:52.15 ``Erik "Frist Post!!!11eleven!!!1"
17:54.33 brlcad hm, probably just need to make the OGL interface check for both ogl and x11 since it's really x11-specific
17:56.26 poolio ahhhhhhhhhhhh
17:56.30 poolio my laptops at 83C
17:56.35 poolio my legs burn.
17:59.37 ``Erik man, that pastebin sucks, it doesn't have syntax highlighting for uh.. uhhhhh.... uhhhhhhhh.... erlang!
17:59.50 poolio haha
17:59.51 ``Erik (damn that's a lot of highlighting options)
18:00.24 brlcad heh
18:00.32 poolio brlcad: http://rafb.net/p/w7nvet33.html
18:02.19 brlcad thx
18:02.29 ``Erik hum, no captcha, wonder how long before it starts seeing spam
18:03.24 brlcad yeah figured id just see how long it takes
18:16.56 ``Erik into liboptical on solaris with the gnu chain
18:35.58 poolio brlcad: I really fail to see why when using rt_clean() there's still a memory leak according to valgrind
18:59.41 poolio brlcad: it's also giving me a lot of whining about unitialized values that are for sure initialized
19:00.50 brlcad example of one?
19:01.48 poolio ==20025== Conditional jump or move depends on uninitialised value(s)
19:01.48 poolio ==20025== at 0x491F397: __printf_fp (in /lib/i686/cmov/libc-2.5.so)
19:01.55 poolio ...
19:02.07 poolio ==20025== by 0x8049578: main (beset.c:170)
19:02.47 poolio And 27 more of those same contexts
19:03.12 IriX64 http://www3.sympatico.ca/mario.dulisse2/7.10.1.png :)
19:03.28 poolio brlcad: Can I just pastebin the whole output?
19:03.30 ``Erik that smells like gnu suckism
19:03.37 brlcad poolio: yes please
19:04.25 poolio brlcad: http://rafb.net/p/JlQa3L28.html
19:05.42 poolio All of the still reachable blocks are leaked I think
19:10.59 poolio Alright, but there's still massive memory leaks somewhere
19:11.16 poolio I think the amount of memory leaked is proportional to the population size
19:11.20 poolio that doesn't help much though
19:12.06 ``Erik line 556 seems to be the biggy
19:12.47 poolio You mean 566?
19:12.55 poolio brlcad said 556 was known
19:12.57 ``Erik yes, sorry
19:13.07 ``Erik the gettree stuff
19:13.12 poolio yeah
19:13.20 poolio shouldn't rt_clean() properly free that stuff? it looked like it did
19:14.07 ``Erik man, solaris is wigging out my nfs server here, heh
19:15.50 ``Erik huh, why is it count+1? (
19:16.41 poolio where?
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19:19.02 poolio ``Erik: oh, it includes the current node as part of the count so that it plays nicely with db_count_tree_nodes
19:19.24 ``Erik ah
19:19.58 poolio ``Erik: were you referencing the return 1+n1+n2?
19:21.28 ``Erik src/librt/tree.c:233 :)
19:22.06 poolio aha! so that's never being free'd?
19:22.37 ``Erik prep has some free's around there, mebbe it's missing those cases
19:23.53 ``Erik are you calling rt_clean() or rt_del_regtree() ?
19:24.01 poolio rt_clean()
19:24.03 ``Erik hrm, ye syou are
19:24.45 ``Erik librt/prep.c:891 should be taking care of that :/
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19:26.42 ``Erik ahhh, the +1 is to dump in a null terminator
19:28.00 ``Erik hummmm
19:28.55 ``Erik you might hack up librt, have a static counter initialized to zero, inc it in tree.c and dec it in prep.c and after the rt_clean, see what that # is, then set it to 0 if you'r egoing to make another pass?
19:29.02 poolio But still, try running the program, it goes crazy with memory, talking a couple hundred megs
19:29.37 poolio ``Erik: hmm worth a shot, I'll have a go
19:29.38 ``Erik to see if you're alloc'ing different amounts? it may be that you get a failed alloc in the middle of the alloc loop, and the dealloc stops at the fail instead of the end?
19:31.13 ``Erik that's only 650k, it lists 420 megs as still reachable at the end
19:31.20 ``Erik heh, accidently msg'd that to brlcad
19:33.39 poolio yeah, the 420megs it's what's messed up
19:33.42 poolio let me re-run valgrind
19:33.57 ``Erik if it's reachable, valgrind won't magically find it
19:34.05 ``Erik I mean, you grok what it means, right?
19:36.29 poolio grok?
19:38.10 ``Erik understand... really well...
19:39.46 poolio reachable means there's still a pointer to it but it wasn't freed at exit, right?
19:41.59 poolio brlcad/``Erik: it looks like the big memory leak is also related to the bu_ptbl_init
19:49.46 ``Erik well, it's free'd at exit() (or, rather, _exit() or whatever exit() calls)
19:50.15 poolio yeah the issue is it fills up my memory during run-time and I need to free it before exit()
19:50.20 ``Erik but it means that there is still a legitimate way to get to that allocated data via the current stack, globals, or statics
19:50.33 ``Erik I'd hope you're not using globals or statics
19:50.46 poolio mmmmmaayyyyyyybeeeee
19:50.49 ``Erik I thought you had to free it between iterations
19:50.57 poolio free what?
19:51.02 poolio Well yes
19:51.06 poolio that'd be true, during iterations
19:51.07 ``Erik the mountains of iteration specific data? :)
19:51.10 poolio *in-between as you said
19:51.31 ``Erik having reachable data at exit() isn't a bad thing
19:51.52 ``Erik no modern OS has system leaks from os space anymore, I think an early win95 was the last to do that
19:51.52 poolio I understand, but I have _too much_ reachable data at exit()
19:52.24 ``Erik is it building up over iterations? like from not freeing iteration specific stuff?
19:53.07 poolio Seems like it
19:53.23 poolio The longer it runs the greater the memory used
19:53.39 poolio And the amount of data the program should be using shouldn't be growing from iteration to iteratin
19:53.44 ``Erik the results you posted are from a single iteration?
19:53.49 poolio no
19:53.52 poolio I think there were like 10
19:54.04 poolio I need to go help jump my mom's car, I'll be back in a bit.
20:13.22 poolio k, i'm back
20:13.29 poolio brlcad: so any ideas?
20:19.13 brlcad is pop->parent[0] the best or worst after sorting
20:19.44 poolio brlcad: worst
20:20.06 brlcad k
20:21.26 ``Erik the globals in population.c would be my best guess for growth at this moment...
20:21.41 poolio ``Erik: Yeah...but they're just pointers
20:21.59 poolio I use them when searching for individuals to crossover or mutate
20:22.13 ``Erik ... pointers are what you're looking for, dude :D
20:22.27 poolio well they're pointers to things that are handled elsewhere
20:23.04 ``Erik mebbe write some quick recursive 'count' functions for 'em to see the size, and print those values between iterations?
20:23.15 ``Erik or null them out between iterations so valgrind can give you better info
20:24.57 poolio Yeah that was a really nasty solution there..
20:25.12 poolio I think when I came up with it, it was just going to be temporary
20:25.26 poolio but I don't see a better way other than passing it as an argument
20:25.28 ``Erik heh
20:27.05 CIA-29 BRL-CAD: 03brlcad * 10brlcad/src/gtools/beset/beset.c: initialize some vars
20:35.18 ``Erik bah fek
20:35.21 poolio brlcad: you fixed the comments, but just FYI the user passes a number and that number is treated as a percentage. So it's keep upper n%, but internally I store it as keep upper n where n != n%
20:35.53 brlcad k
20:36.38 poolio brlcad: so it's a good practice to initalize my variables even if I know they will not be used uninitialized?
20:37.58 brlcad yes
20:38.12 ``Erik gcc's warnings will usually flag that situation
20:38.26 ``Erik it's good practice to have your CFLAGS include something like -W -Wall -Werror -ansi -pedantic
20:38.27 ``Erik :)
20:38.28 poolio yeah I test with -Wall as well as a few others
20:38.33 poolio ``Erik: :-)
20:38.46 poolio sometimes I hate -pedantic though...
20:38.55 ``Erik yeah, it's so... pedantic
20:39.29 brlcad it's generally good practice as someone down the road might not necessarily be using the same compiler, same conditions, or even worse as the code changes over the years
20:39.46 poolio lies! it shall never change ;)
20:40.12 brlcad someone edits the code in a couple years (maybe even yourself) and those same assumptions that "some intermediate call" happened to initialize it may no longer hold
20:40.23 poolio true true.
20:40.27 ``Erik code that never changes generally does so because no one ever uses it...
20:40.35 ``Erik I mean, the freakin' LANGUAGE changes
20:40.47 brlcad sure it's a problem down the road, but it's easy enough to just initialize, makes debugging easier too as they're in a known state at the start of the stack
20:42.24 poolio ==21574== 15,531,368 (74,128 direct, 15,457,240 indirect) bytes in 31 blocks are definitely lost in loss record 10 of 10
20:42.28 poolio ==21574== at 0x40227EF: calloc (vg_replace_malloc.c:279)
20:42.30 poolio ==21574== by 0x4759652: bu_alloc (malloc.c:284)
20:42.33 poolio ==21574== by 0x4760078: bu_ptbl_init (ptbl.c:77)
20:42.35 poolio ==21574== by 0x42453BD: rt_init_resource (prep.c:648
20:43.28 brlcad one step at a time
20:43.29 poolio Goes up ~1mb/s
20:43.35 poolio :)
20:43.46 brlcad did the printf's go away?
20:44.14 poolio no.
20:44.35 brlcad so there's still something there, I'm just not seeing it
20:44.44 poolio something where? in my stuff?
20:44.53 brlcad if it was just some glibc issue, it'd be on other printf's
20:45.18 brlcad it's on a specific one
20:45.18 poolio true
20:45.23 poolio it could be possible it is uninitialized
20:45.23 brlcad that's valgrind giving you a hint
20:45.28 poolio but the program outputs reasonable results
20:49.02 poolio eek. 82C. (doing a larger run
20:49.03 poolio )
20:50.58 CIA-29 BRL-CAD: 03brlcad * 10brlcad/src/gtools/beset/ (beset.c beset.h population.c population.h): no need to malloc a single struct once, just use it
20:52.04 poolio fstate?
20:52.54 brlcad that's another one
20:52.58 poolio brlcad: longer run: http://rafb.net/p/JWdT8589.html
20:57.32 CIA-29 BRL-CAD: 03poolio * 10brlcad/src/gtools/beset/population.c: some documentation. re-initialize global vars every iteration.
20:58.42 poolio brlcad: are you dealing with fstate? I can do that if you want
21:00.56 brlcad go for it
21:01.07 poolio k
21:05.16 poolio eek I broke something.
21:07.57 poolio brlcad: going to pick up car, back in 10
21:08.11 CIA-29 BRL-CAD: 03brlcad * 10brlcad/src/gtools/beset/ (beset.c population.c): quell several warnings
21:08.14 brlcad be sure to update, I think I missed some parens on that first update
21:08.18 brlcad cya
21:20.06 poolio <PROTECTED>
21:21.56 *** join/#brlcad b0ef (n=b0ef@062016141081.customer.alfanett.no)
21:42.30 poolio Bad magic number in re_solid_btiv list
23:13.53 brlcad poolio: are you compiled optimized or debug?
23:28.17 brlcad some big issue with your usage of the resource structure, curious to see how things look after refactoring fstate
23:28.45 *** join/#brlcad Twingy (n=justin@74.92.144.217)

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