Posts by macko

1) Message boards : Number crunching : Message from AI? (Message 77868)
Posted 28 Jan 2015 by Profile macko
Post:
A part of stderr out

# cpu_run_time_pref: 43200
Continuing computation from checkpoint: chk_S_00035_FragmentSampler__stage1 ... success!
Continuing computation from checkpoint: chk_S_00035_FragmentSampler__stage2 ... success!
Continuing computation from checkpoint: chk_S_00035_FragmentSampler__stage_3_iter1_1 ... success!
Continuing computation from checkpoint: chk_S_00035_FragmentSampler__stage_3_iter1_2 ... success!
Continuing computation from checkpoint: chk_S_00035_FragmentSampler__stage_3_iter1_3 ... success!
hey is this the right thing to be doing???
hey is this the right thing to be doing???
hey is this the right thing to be doing???
hey is this the right thing to be doing???
hey is this the right thing to be doing???
hey is this the right thing to be doing???
hey is this the right thing to be doing???
hey is this the right thing to be doing???
hey is this the right thing to be doing???
hey is this the right thing to be doing???
hey is this the right thing to be doing???
hey is this the right thing to be doing???
hey is this the right thing to be doing???
hey is this the right thing to be doing???
hey is this the right thing to be doing???
hey is this the right thing to be doing???
hey is this the right thing to be doing???
hey is this the right thing to be doing???
hey is this the right thing to be doing???
hey is this the right thing to be doing???
hey is this the right thing to be doing???
hey is this the right thing to be doing???
hey is this the right thing to be doing???
hey is this the right thing to be doing???
[2015- 1-27 14:17:23:] :: BOINC:: Initializing ... ok.
[2015- 1-27 14:17:23:] :: BOINC :: boinc_init()
BOINC:: Setting up shared resources ... ok.
BOINC:: Setting up semaphores ... ok.
BOINC:: Updating status ... ok.
BOINC:: Registering timer callback... ok.
BOINC:: Worker initialized successfully.
command: projects/boinc.bakerlab.org_rosetta/minirosetta_3.52_windows_x86_64.exe @6h2r13131012415_fold_and_dock_flags -silent_gz -mute all -out:file:silent default.out -in:file:boinc_wu_zip fold_and_dock_6h2r13131012415_data.zip -nstruct 10000 -cpu_run_time 21600 -checkpoint_interval 120 -database minirosetta_database -in::file::zip minirosetta_database.zip -boinc::watchdog -run::rng mt19937 -constant_seed -jran 1971070
Registering options..
2) Message boards : Number crunching : Any pointers for this failure? (Message 72868)
Posted 23 Apr 2012 by Profile macko
Post:
Thanks again

I suppose then I need to create a config.xml file (or cc_config), (search returned nothing)? This is not user friendly... :). By the way, "exclude GPU or no GPU" options are available from ver. 6.xx configs.

Would setting up a config.xml with the option set not to use a GPU work?
Something like:
<options>
<no_gpu>1</no_gpu>
</options>



The file you are looking for is a cc_config.xml file, the web page is here:
http://boinc.berkeley.edu/wiki/Client_configuration

The no gpu option is listed as:
<no_gpus>0|1</no_gpus>
If 1, don't use GPUs even if they're present. List-add.pngNew in 6.6

and you can see it has been available since version 6.6


Ok, thanks again and again...
The situation is as you can see above, that I use Boinc ver. 5.XX instead of 6.XX. Why? On this garbage with Win98se, available 6.xx version unable to connect the client-localhost. Reason: the client not starting. Solution from boinc mngr (error message): go to control panel, admin tools and start the service. HAHAHA. There is no such thing in win98 control panel and there are no services in win 98, only processes as I know. As you see, the solution for a problem is suitable for higher OS...By the way during install there were sometimes error messages (start with repair.... and so on).
Install-reinstall-uninstall-repair boinc, "refresh" setup of OS has not solved the issue. There is no possibility to change or upgrade the system (corporate stuff)
Finally thanks to all. My opinion that this mess can't be solved.

your sincerely



3) Message boards : Number crunching : Any pointers for this failure? (Message 72866)
Posted 23 Apr 2012 by Profile macko
Post:
Thanks again

I suppose then I need to create a config.xml file (or cc_config), (search returned nothing)? This is not user friendly... :). By the way, "exclude GPU or no GPU" options are available from ver. 6.xx configs.

Would setting up a config.xml with the option set not to use a GPU work?
Something like:
<options>
<no_gpu>1</no_gpu>
</options>

4) Message boards : Number crunching : Any pointers for this failure? (Message 72865)
Posted 23 Apr 2012 by Profile macko
Post:
I think we have similar error report despite different OS.
Mine:
Exit status: -185 (0xffffffffffffff47).
stderr out
<core_client_version>5.8.16</core_client_version>
<![CDATA[
<message>
CreateProcess() failed - Device attached to the system is not functioning. (0x1f)
</message>
]]>


The machine was happily working on BOINC 6.something. An upgrade to 7.0.25, another project reset, and no joy. Just watched as it took another try on the one work unit per day the project is allowing after so many failures. Same behavior, download of everything happens, then five process creation failures, and the task is finished with status of computation error. Same exit status (-185). No firewall requests or antivirus action. Nothing in the Windows event logs.

This machine isn't going to be upgraded beyond what it is licensed for (Win2K), and it still functions for its primary purposes, home file server and Squeeezebox server.

Apologizes for not being up to speed, but is there anything straightforward I can do to report this failure to developers, along the lines of emailing or posting some additional status file, or enabling some diagnostic mode? If not I guess this machine retires from Rosetta.

Thanks!


Does "device attached to the system" refer to a GPU? I.e. is it looking for a GPU and getting no response because there isn't one (at least not the one it's looking for)?

Does selecting 'Suspend GPU' in BOINC make a difference?


Hi

Thanks for your efforts. But... In this version (<core_client_version>5.8.16</core_client_version>) I think there is no GPU option. Also in 3.24 there was the "device", in 3.26 it has "gone" immediately...
5) Message boards : Number crunching : Any pointers for this failure? (Message 72817)
Posted 18 Apr 2012 by Profile macko
Post:
I think we have similar error report despite different OS.
Mine:
Exit status: -185 (0xffffffffffffff47).
stderr out
<core_client_version>5.8.16</core_client_version>
<![CDATA[
<message>
CreateProcess() failed - Device attached to the system is not functioning. (0x1f)
</message>
]]>


The machine was happily working on BOINC 6.something. An upgrade to 7.0.25, another project reset, and no joy. Just watched as it took another try on the one work unit per day the project is allowing after so many failures. Same behavior, download of everything happens, then five process creation failures, and the task is finished with status of computation error. Same exit status (-185). No firewall requests or antivirus action. Nothing in the Windows event logs.

This machine isn't going to be upgraded beyond what it is licensed for (Win2K), and it still functions for its primary purposes, home file server and Squeeezebox server.

Apologizes for not being up to speed, but is there anything straightforward I can do to report this failure to developers, along the lines of emailing or posting some additional status file, or enabling some diagnostic mode? If not I guess this machine retires from Rosetta.

Thanks!
6) Message boards : Number crunching : Any pointers for this failure? (Message 72800)
Posted 17 Apr 2012 by Profile macko
Post:
Hi
I have a quite similar problem on one of my old PC. It runs Win98 SE and from last update (3,26) all Wu-s finished immediately. Previously I tried to run some other low demand projects on this device. Many has similar problems: unable to load device bla-bla. Some are able to run correctly (POEM, SIMAP, SZTAKI). I think, despite most of the projects says they are compatible with old OS-s, practically they don't. It is just a matter of time that program developers ignore old OSs in new releases.

With regards

PS: I checked lots of forums about this and no solution found except upgrade the OS.

Machine is Win2K, so no per-executable permissions. I checked and didn't see anything recent in antivirus quarantine, nor did it flag anything after the project reset (which seemed to have dumped all the files, since I saw it downloading executables again). I'll check the firewall log, but all the software firewall on that old box does is rules controlling network access. So unless the new executable needs its own internet access rules (versus Boinc's standing rules), I'm not inclined to think the firewall is the issue.

Thanks!

7) Message boards : Number crunching : Problems with web site (Message 71090)
Posted 18 Aug 2011 by Profile macko
Post:
Wow

Results comes up again.


And down. It was only transient sparkling.
8) Message boards : Number crunching : Problems with web site (Message 71087)
Posted 18 Aug 2011 by Profile macko
Post:
Wow

Results comes up again.
9) Message boards : Number crunching : Newbie Q&A, if you're new, have a view! (Message 70567)
Posted 17 Jun 2011 by Profile macko
Post:
Hello Forum,
I have a general question. There are times that I defrag my hard drive and also run a program called Advanced System Care by IObit Information technology.
This program removes junk files, scans for malware, fixes registry errors, and
defrags my hard drive. I have been using this program for a few years now and it brings up the question. By running this program does it in anyway interfere rosetta@home or any other @home projects ??.


Hi

I think no. I use this app. somethimes also, but there wasn't any major effect on my running projects.

With regards
10) Message boards : Number crunching : Problems with web site (Message 70155)
Posted 28 Apr 2011 by Profile macko
Post:
The results server should now be working, as indicated in this post.

Also, the list of articles and papers written by the Project Team has just been updated here.


Thanks!!!
11) Message boards : Number crunching : minirosetta 2.05 (Message 65070)
Posted 22 Jan 2010 by Profile macko
Post:
Here's a couple of relaxopt_grow WUS that exited after a few seconds with the error:

ERROR: LoopRebuild::ERROR Loop definition out of boundary
ERROR:: Exit from: src/protocols/loops/Loops.cc line: 595
BOINC:: Error reading and gzipping output datafile: default.out

http://boinc.bakerlab.org/rosetta/result.php?resultid=312109858
http://boinc.bakerlab.org/rosetta/result.php?resultid=312068049


Same error, same wus relaxopt_grow.1ctf.1ctf.
12) Message boards : Number crunching : minirosetta 2.05 (Message 65049)
Posted 20 Jan 2010 by Profile macko
Post:
Could you elaborate what it is that you're seeing? These types of job are treated as others in these respects.


Hi

This WU's, "8gbnnotyr" and older "dock" types won't be listed on results pages?

With regards


Hi

There were some WUs not showed on results page, here is small (uncomplete)collection from last months:
aTt13
histone
1 famA
foldit WUs
denovo_design_rossmann2x3_flxbb (a really RAM eating ang long running ones)
NeR103A
CGR26A
and finally this two from 2010: CtR69A_2KRU_BOINC_ABRELAX, 3gbn bla-bla&gz_dock

And now the 8gbnnotyr WUs seems to have similar fate, crunching only for credit.
13) Message boards : Number crunching : minirosetta 2.05 (Message 65047)
Posted 20 Jan 2010 by Profile macko
Post:

Hi

This WU's, "8gbnnotyr" and older "dock" types won't be listed on results pages?

With regards
14) Questions and Answers : Web site : Result plots not working? (Message 64427)
Posted 10 Dec 2009 by Profile macko
Post:


Hi

There are some WUs not listed in results: starting with aTt13, histone, 1 famA. Why?
Which proteins are aTt13 and 1famA?

What does vanilla means in many of WUs?

Thanks


I extend my question:
All of the foldit WUs
denovo_design_rossmann2x3_flxbb (a really RAM eating ang long running ones)


Some new ones:
NeR103A
CGR26A
15) Message boards : Number crunching : sel_core_2.0 units crashing quickly. (Message 64079)
Posted 18 Nov 2009 by Profile macko
Post:
got the same error as adrian on 2 tasks


Hi

The same on 3 tasks
16) Questions and Answers : Web site : Result plots not working? (Message 63935)
Posted 3 Nov 2009 by Profile macko
Post:


Hi

There are some WUs not listed in results: starting with aTt13, histone, 1 famA. Why?
Which proteins are aTt13 and 1famA?

What does vanilla means in many of WUs?

Thanks


I extend my question:
All of the foldit WUs
denovo_design_rossmann2x3_flxbb (a really RAM eating ang long running ones)
17) Message boards : Rosetta@home Science : Structure predictions in copper-bearing proteins (Message 63805)
Posted 24 Oct 2009 by Profile macko
Post:
Hi

It is very exciting to have infos about copper binding proteins, some of them are really important in oxido-reductase processes, especially the SOD. But are we crunching any of them? The PDB codes are not familiar to me.
By the way I am curius about what is Rosetta's plan about this: 1cc8 a mercury binding metallochaperone atx1?
Actualy similar structures (atx1) could be involved in copper transport also.

With regards
18) Message boards : Number crunching : Minirosetta 1.98 (Message 63804)
Posted 24 Oct 2009 by Profile macko
Post:
Second chance for this one also proved a failure:

lr8_A_seq_score12_shake_ss1.7_rlbd_1c8c_IGNORE_THE_REST_DECOY_14949_2196

Repeated lines in the stderr txt point to this error

Exception:
failure to read decoy F_00018_0004416_0_0001 from silent-file lr8_shake_1c8c.out
[2009-10-17 20:10:35:] :: BOINC:: Initializing ... ok.


Hi

Similar error with this:
http://boinc.bakerlab.org/rosetta/workunit.php?wuid=263361396
Exception:
failure to read decoy F_00023_0001585_0 from silent-file lr8_1lou.out
CPU time 15.23438

And a different one with these:
http://boinc.bakerlab.org/rosetta/workunit.php?wuid=263361627
Unhandled Exception Detected...

- Unhandled Exception Record -
Reason: Access Violation (0xc0000005) at address 0x00436BD8 read attempt to address 0x018BD000

Engaging BOINC Windows Runtime Debugger...

http://boinc.bakerlab.org/rosetta/workunit.php?wuid=263361627
Unhandled Exception Detected...

- Unhandled Exception Record -
Reason: Access Violation (0xc0000005) at address 0x00436BD8 read attempt to address 0x018BD000

Engaging BOINC Windows Runtime Debugger...

After these 3 the program runs normal

19) Questions and Answers : Web site : Result plots not working? (Message 63767)
Posted 20 Oct 2009 by Profile macko
Post:


Hi

There are some WUs not listed in results: starting with aTt13, histone, 1 famA. Why?
Which proteins are aTt13 and 1famA?

What does vanilla means in many of WUs?

Thanks
20) Message boards : Number crunching : Report long-running models here (Message 63670)
Posted 13 Oct 2009 by Profile macko
Post:
Hi

This WU "Rossmann2X3_036_15149_10247" probably have stopped at 30,250% while the CPU time proceded. After pause-resume it finished elapsing app. 9 hours. In report 7870 sec is the CPU time.

http://boinc.bakerlab.org/rosetta/result.php?resultid=287006963


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