Bug reports for 5.89

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Ingemar
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Message 3532 - Posted: 13 Dec 2007, 2:24:04 UTC

Please report bugs for version 5.89 here.
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Pieface

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Message 3534 - Posted: 13 Dec 2007, 21:00:11 UTC

wowzers, takes a while to run these guys thru. I just finished my first, took almost six hours (21,240 secs)to do one decoy on my p-4 2.8ghz Win-xp box. I\'m gonna have to up my preferences if they are all going to run this long!

Resid 709016
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Message 3536 - Posted: 15 Dec 2007, 2:51:36 UTC - in response to Message 3534.  

Hi: yup, they\'re going to take a while... when we apply filters (to allow premature exits for unpromising model), they will average 2-3 hours per model. But these are totally worth it!

wowzers, takes a while to run these guys thru. I just finished my first, took almost six hours (21,240 secs)to do one decoy on my p-4 2.8ghz Win-xp box. I\'m gonna have to up my preferences if they are all going to run this long!

Resid 709016


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Message 3537 - Posted: 15 Dec 2007, 6:14:19 UTC

Well,one of them was very quickly thrown out...
This task took too much memory and since BOINC tried second RALPH task if that one will run quickly virtual memory was insufficently small for this and task crashed.(975MB of VM)

Cruncher is notebook and I cannnot increase VM for disk is too small.
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sqweeser

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Message 3538 - Posted: 15 Dec 2007, 8:30:40 UTC
Last modified: 15 Dec 2007, 8:32:38 UTC

Noticed graphic bug in accepted energy bar in this work unit:
http://ralph.bakerlab.org/workunit.php?wuid=632126
It looked like that few minutes but disappeared after while.


Edit: As you can see, it appeared when 43.69% was completed.
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Klimax

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Message 3540 - Posted: 15 Dec 2007, 11:39:09 UTC

Argh,second task crashed.Same reason.May be they should come with warning about high usage of VM...
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Message 3541 - Posted: 15 Dec 2007, 12:39:42 UTC

Actually I can see high VM usage too but my computer/tasks haven\'t crashed because my VM is set to 1,5 GBs. At the moment mem usage is 106 MBs and VM usage 923 MBs. Same WU that I mentioned above...
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Message 3543 - Posted: 16 Dec 2007, 6:25:04 UTC

Is it just me, or is the Time To Completion acting strangely?

It seems to get stuck when it says there are about 10 minutes left. Meanwhile the WU continues to run for another hour, then it all goes to 100% and it\'s done.

It shouldn\'t have anything to do with my Result Duration Correction Factor, or CPU Effiency, because I\'ve been doing this for a while and those were calculated a long time ago for this system.

My impression is that it\'s a fairly recent phenomenon, maybe since 5.85 or so.

Anyone else have thoughts about this?

==Mike
Don't believe everything you think.
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Message 3544 - Posted: 16 Dec 2007, 17:25:26 UTC - in response to Message 3534.  

wowzers, takes a while to run these guys thru.

I\'ve seen this also. My preferences are set to 3600 seconds, and some of these are taking between 7000-9000 seconds to generate 1 decoy.

==Mike
Don't believe everything you think.
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Message 3545 - Posted: 16 Dec 2007, 19:09:09 UTC

That is always the case with long running models. Once they get down to 10 min the time estimate goes down the tubes. So they just keep increasing the % completed when it is refigured every 5 seconds, and that way the time keeps generally steady or falling. But it actually doesn\'t know how much longer it will run. So, yes, it is odd, but it is normal when the models take a long time. Especially if they take longer then your runtime preference.
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Message 3546 - Posted: 16 Dec 2007, 21:02:04 UTC

My observation at the model end was, the % completed was steady and ETA was moving up and down, mostly up (off course).

And the mentioned graphics bug was hapening at the last few % of progress too.

Peter
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Message 3548 - Posted: 17 Dec 2007, 9:29:50 UTC

Outcome Client error
Client state Downloading

http://ralph.bakerlab.org/result.php?resultid=713635

Exit status -186 (0xffffffffffffff46)

CPU time 0
stderr out

<core_client_version>5.10.28</core_client_version>
<![CDATA[
<message>
WU download error: couldn\'t get input files:
<file_xfer_error>
<file_name>native_1zpy_.psipred_ss2.gz</file_name>
<error_code>-200</error_code>
</file_xfer_error>

</message>
]]>

Validate state Invalid
Claimed credit 0
Granted credit 0
application version 5.89
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Message 3549 - Posted: 17 Dec 2007, 9:31:43 UTC

Outcome Client error
Client state Downloading

http://ralph.bakerlab.org/result.php?resultid=713620

Exit status -186 (0xffffffffffffff46)

CPU time 0
stderr out

<core_client_version>5.10.28</core_client_version>
<![CDATA[
<message>
WU download error: couldn\'t get input files:
<file_xfer_error>
<file_name>native_1zpy_.fasta.gz</file_name>
<error_code>-200</error_code>
</file_xfer_error>
<file_xfer_error>
<file_name>native_1zpy_.psipred_ss2.gz</file_name>
<error_code>-200</error_code>
</file_xfer_error>

</message>
]]>

Validate state Invalid
Claimed credit 0
Granted credit 0
application version 5.89

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Message 3550 - Posted: 17 Dec 2007, 9:33:57 UTC

Outcome Client error
Client state Downloading

http://ralph.bakerlab.org/result.php?resultid=713599

Exit status -186 (0xffffffffffffff46)

CPU time 0
stderr out

<core_client_version>5.10.28</core_client_version>
<![CDATA[
<message>
WU download error: couldn\'t get input files:
<file_xfer_error>
<file_name>native_1zpy_.fasta.gz</file_name>
<error_code>-200</error_code>
</file_xfer_error>
<file_xfer_error>
<file_name>native_1zpy_.psipred_ss2.gz</file_name>
<error_code>-200</error_code>
</file_xfer_error>

</message>
]]>

Validate state Invalid
Claimed credit 0
Granted credit 0
application version 5.89
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Rhiju
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Message 3553 - Posted: 20 Dec 2007, 1:23:54 UTC - in response to Message 3538.  

Thanks for the screenshot -- we\'re looking into this, but the craziness may not be fixed for a few updates...

Noticed graphic bug in accepted energy bar in this work unit:
http://ralph.bakerlab.org/workunit.php?wuid=632126
It looked like that few minutes but disappeared after while.


Edit: As you can see, it appeared when 43.69% was completed.


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Message 3555 - Posted: 20 Dec 2007, 10:31:11 UTC

Computational errors on two 5.89 WU\'s
This WU and this WU both have the same error and ran for zero time

<core_client_version>5.8.15</core_client_version>
<![CDATA[
<message>
Incorrect function. (0x1) - exit code 1 (0x1)
</message>
<stderr_txt>
# cpu_run_time_pref: 21600
ERROR:: Exit from: .\\input_pdb.cc line: 3028

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