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Thread: Mapping Cancer Markers Beta Test - Version 7.28 [ Issues Thread ]

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Re: Mapping Cancer Markers Beta Test - Version 7.28 [ Issues Thread ]

Not sure if anyone has been running with client throttle, old or new, but the >7.2.29 sub-second implementation is getting a workover [I've shied away from using it as my systems display-clock started running fast [not a joke]. The key is, if LIM [what we call LAIM], and RFM [remove from mmeory, do impact the app/task in same way, it may account e.g. for the by some observed elapsed to cpu time disparities. From the devs:

And on this test, still 18 out of 22 cores doing 7.28... now doing this nearly non-stop for the past 16 hours or so. Quite a few at batch 216... they run and run and run [and record progress ;>]

edit: insert quote encapsulation. [Anyone knows how to quick indent text without resorting to the non long line wrapping [ code] BBCode? OK, simply use the 'list' code.

----------------------------------------
[Edit 2 times, last edit by Former Member at Dec 13, 2013 10:12:04 PM]

[Dec 13, 2013 2:07:55 PM]

kateiacy
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Re: Mapping Cancer Markers Beta Test - Version 7.28 [ Issues Thread ]

I managed to get several of the 728 WU suspended and restarted with LAIM turned off, and shut down one machine overnight. Eager to see whether all of these validate.

----------------------------------------

[Dec 13, 2013 2:24:08 PM]

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Re: Mapping Cancer Markers Beta Test - Version 7.28 [ Issues Thread ]

So far, all 727 and 728 Betas turned valid after memory unload.
All of the MCM1 application versions including Beta run somewhat hot, however, i had them only compared with non WCG apps (CPDN and Constellation). Probably a sign of efficient usage of processor features ;) Maybe something to keep in mind if you're intending to port to Android.

[Dec 13, 2013 2:40:05 PM]

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Re: Mapping Cancer Markers Beta Test - Version 7.28 [ Issues Thread ]

For techs/admin.

Seeing ranges of 4KB to 1267KB in the transfer upload queue for these BETAs, only now looked hard at the System Requirement page where it says 3MB in the upload column. Maybe as for CEP2, a range is better to put there, to prevent concern. E.g. from 0.02MB - 3MB.

[Dec 13, 2013 6:37:07 PM]

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Re: Mapping Cancer Markers Beta Test - Version 7.28 [ Issues Thread ]

Receive total of 46 WUs across 5 systems
21 are currently running
25 are Valid or Pending Validation

No issues/problems found running the following three tests on all 5 systems running Beta:
-1- Reboot
-2- Suspend & Resume WUs in groups and individually
-3- Suspend & Resume WCG Project

----------------------------------------

[Dec 13, 2013 6:38:03 PM]

breathesgelatin
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Re: Mapping Cancer Markers Beta Test - Version 7.28 [ Issues Thread ]

Well, 7.28 doesn't seem to be solving the problem for me. I actually had at least one validate, but the rest seem to be either errors or invalids.

Here's an example error:

<core_client_version>7.2.33</core_client_version>
<![CDATA[
<message>
(unknown error) - exit code -529697949 (0xe06d7363)
</message>
<stderr_txt>
Commandline = projects/www.worldcommunitygrid.org/wcgrid_beta17_7.28_windows_intelx86 -SettingsFile MCM1_0000216_1149.txt -DatabaseFile dataset-17_72_SDG_v1.txt
Settings File
DateOfDesign = 11/08/2013
Designer = PMCC_OCI
WorkOrderID = 0000216_1149
DatasetID = 17_72_SDG_v1
NumberOfGenesInStartingSignature = 20
NumberOfGenesInSignatureMin = 10
NumberOfGenesInSignatureMax = 20
GroupVectorValues = {A}{B}{C}{D}{E}{F}
ExplicitStartingGeneSignatures = A B D F
StartingGeneSignatureAlgorithm = randomFixedLengthSearch
SearchAlgorithmNumberToCreate = 1
SearchAlgorithmSequentialStartPosition = 5
RunPermutationAlgorithm = 1
PermutationGroups = A
PermutationGroupsForReplacement = G
PermutationAlgorithm = replaceFromRandomlyToRandomlyGreedy
PermutationsNumIterations = 67911
OptimizationAlgorithmFrequency = 0 0 1
FBeta = 1.5
SimAnnealIMax = 20000
SimAnnealAlpha = 0.9996
NReps = 10
TrainFrac = 0.7
NFolds = 10
VMethod = LOO
ModelType = SVM
FitnessFn = 0
MinFitness = 0.61
SvmArgs = "-v 0 -c 0.1 -t 1 -d 2 -r 0"
SvmLearnLimit = 500000
RSeed = 511149

[20:44:38] Initializing
[20:44:45] Running
[20:44:45] EvaluateFitnessOfStartingGeneSignatures 1
[20:44:45]: Computing pass 0
Commandline = projects/www.worldcommunitygrid.org/wcgrid_beta17_7.28_windows_intelx86 -SettingsFile MCM1_0000216_1149.txt -DatabaseFile dataset-17_72_SDG_v1.txt
[22:45:50] Initializing

Unhandled Exception Detected...

- Unhandled Exception Record -
Reason: Out Of Memory (C++ Exception) (0xe06d7363) at address 0x75EEC41F

Engaging BOINC Windows Runtime Debugger...

********************

BOINC Windows Runtime Debugger Version 7.2.4

Dump Timestamp : 12/12/13 22:45:51
Install Directory : C:\Program Files (x86)\BOINC\
Data Directory : C:\ProgramData\BOINC
Project Symstore :
LoadLibraryA( C:\Program Files (x86)\BOINC\\dbghelp.dll ): GetLastError = 126
Loaded Library : dbghelp.dll
LoadLibraryA( C:\Program Files (x86)\BOINC\\symsrv.dll ): GetLastError = 126
LoadLibraryA( symsrv.dll ): GetLastError = 126
LoadLibraryA( C:\Program Files (x86)\BOINC\\srcsrv.dll ): GetLastError = 126
LoadLibraryA( srcsrv.dll ): GetLastError = 126
LoadLibraryA( C:\Program Files (x86)\BOINC\\version.dll ): GetLastError = 126
Loaded Library : version.dll
Debugger Engine : 4.0.5.0
Symbol Search Path: C:\ProgramData\BOINC\slots\3;C:\ProgramData\BOINC\projects\www.worldcommunitygrid.org

ModLoad: 0000000000e30000 0000000000142000 C:\ProgramData\BOINC\projects\www.worldcommunitygrid.org\wcgrid_beta17_7.28_windows_intelx86 (-exported- Symbols Loaded)
Linked PDB Filename : c:\projects\wcgridAustinWorkspace\scienceApps\MCM1\Release\wcgrid_mcm1_prod_32.pdb

ModLoad: 0000000077130000 0000000000180000 C:\Windows\SysWOW64\ntdll.dll (6.1.7601.18247) (-exported- Symbols Loaded)
Linked PDB Filename : wntdll.pdb
File Version : 6.1.7600.16385 (win7_rtm.090713-1255)
Company Name : Microsoft Corporation
Product Name : Microsoft® Windows® Operating System
Product Version : 6.1.7600.16385

ModLoad: 0000000075d30000 0000000000110000 C:\Windows\syswow64\kernel32.dll (6.1.7601.18229) (-exported- Symbols Loaded)
Linked PDB Filename : wkernel32.pdb
File Version : 6.1.7601.18015 (win7sp1_gdr.121129-1432)
Company Name : Microsoft Corporation
Product Name : Microsoft® Windows® Operating System
Product Version : 6.1.7601.18015

ModLoad: 0000000075ee0000 0000000000047000 C:\Windows\syswow64\KERNELBASE.dll (6.1.7601.18229) (-exported- Symbols Loaded)
Linked PDB Filename : wkernelbase.pdb
File Version : 6.1.7601.18015 (win7sp1_gdr.121129-1432)
Company Name : Microsoft Corporation
Product Name : Microsoft® Windows® Operating System
Product Version : 6.1.7601.18015

ModLoad: 0000000072480000 0000000000009000 C:\Windows\system32\VERSION.dll (6.1.7600.16385) (-exported- Symbols Loaded)
Linked PDB Filename : version.pdb
File Version : 6.1.7600.16385 (win7_rtm.090713-1255)
Company Name : Microsoft Corporation
Product Name : Microsoft® Windows® Operating System
Product Version : 6.1.7600.16385

ModLoad: 0000000074db0000 00000000000ac000 C:\Windows\syswow64\msvcrt.dll (7.0.7601.17744) (-exported- Symbols Loaded)
Linked PDB Filename : msvcrt.pdb
File Version : 7.0.7601.17744 (win7sp1_gdr.111215-1535)
Company Name : Microsoft Corporation
Product Name : Microsoft® Windows® Operating System
Product Version : 7.0.7601.17744

ModLoad: 0000000075d20000 0000000000005000 C:\Windows\syswow64\PSAPI.DLL (6.1.7600.16385) (-exported- Symbols Loaded)
Linked PDB Filename : psapi.pdb
File Version : 6.1.7600.16385 (win7_rtm.090713-1255)
Company Name : Microsoft Corporation
Product Name : Microsoft® Windows® Operating System
Product Version : 6.1.7600.16385

ModLoad: 0000000076240000 0000000000100000 C:\Windows\syswow64\USER32.dll (6.1.7601.17514) (-exported- Symbols Loaded)
Linked PDB Filename : wuser32.pdb
File Version : 6.1.7601.17514 (win7sp1_rtm.101119-1850)
Company Name : Microsoft Corporation
Product Name : Microsoft® Windows® Operating System
Product Version : 6.1.7601.17514

ModLoad: 0000000076850000 0000000000090000 C:\Windows\syswow64\GDI32.dll (6.1.7601.18275) (-exported- Symbols Loaded)
Linked PDB Filename : wgdi32.pdb
File Version : 6.1.7601.18275 (win7sp1_gdr.131002-1533)
Company Name : Microsoft Corporation
Product Name : Microsoft® Windows® Operating System
Product Version : 6.1.7601.18275

ModLoad: 0000000077100000 000000000000a000 C:\Windows\syswow64\LPK.dll (6.1.7601.18177) (-exported- Symbols Loaded)
Linked PDB Filename : wlpk.pdb
File Version : 6.1.7601.18177 (win7sp1_gdr.130605-1534)
Company Name : Microsoft Corporation
Product Name : Microsoft® Windows® Operating System
Product Version : 6.1.7601.18177

ModLoad: 0000000075e40000 000000000009d000 C:\Windows\syswow64\USP10.dll (1.626.7601.18009) (-exported- Symbols Loaded)
Linked PDB Filename : usp10.pdb
File Version : 1.0626.7601.18009 (win7sp1_gdr.121121-1431)
Company Name : Microsoft Corporation
Product Name : Microsoft(R) Uniscribe Unicode script processor
Product Version : 1.0626.7601.18009

ModLoad: 00000000760d0000 00000000000a0000 C:\Windows\syswow64\ADVAPI32.dll (6.1.7601.18247) (-exported- Symbols Loaded)
Linked PDB Filename : advapi32.pdb
File Version : 6.1.7600.16385 (win7_rtm.090713-1255)
Company Name : Microsoft Corporation
Product Name : Microsoft® Windows® Operating System
Product Version : 6.1.7600.16385

ModLoad: 0000000074e80000 0000000000019000 C:\Windows\SysWOW64\sechost.dll (6.1.7600.16385) (-exported- Symbols Loaded)
Linked PDB Filename : sechost.pdb
File Version : 6.1.7600.16385 (win7_rtm.090713-1255)
Company Name : Microsoft Corporation
Product Name : Microsoft® Windows® Operating System
Product Version : 6.1.7600.16385

ModLoad: 0000000076340000 00000000000f0000 C:\Windows\syswow64\RPCRT4.dll (6.1.7601.18205) (-exported- Symbols Loaded)
Linked PDB Filename : wrpcrt4.pdb
File Version : 6.1.7600.16385 (win7_rtm.090713-1255)
Company Name : Microsoft Corporation
Product Name : Microsoft® Windows® Operating System
Product Version : 6.1.7600.16385

ModLoad: 0000000074c90000 0000000000060000 C:\Windows\syswow64\SspiCli.dll (6.1.7601.18270) (-exported- Symbols Loaded)
Linked PDB Filename : wsspicli.pdb
File Version : 6.1.7601.18270 (win7sp1_gdr.130924-1532)
Company Name : Microsoft Corporation
Product Name : Microsoft® Windows® Operating System
Product Version : 6.1.7601.18270

ModLoad: 0000000074c80000 000000000000c000 C:\Windows\syswow64\CRYPTBASE.dll (6.1.7600.16385) (-exported- Symbols Loaded)
Linked PDB Filename : cryptbase.pdb
File Version : 6.1.7600.16385 (win7_rtm.090713-1255)
Company Name : Microsoft Corporation
Product Name : Microsoft® Windows® Operating System
Product Version : 6.1.7600.16385

ModLoad: 0000000074f10000 0000000000c4a000 C:\Windows\syswow64\SHELL32.dll (6.1.7601.18222) (-exported- Symbols Loaded)
Linked PDB Filename : shell32.pdb
File Version : 6.1.7601.17514 (win7sp1_rtm.101119-1850)
Company Name : Microsoft Corporation
Product Name : Microsoft® Windows® Operating System
Product Version : 6.1.7601.17514

ModLoad: 0000000074d50000 0000000000057000 C:\Windows\syswow64\SHLWAPI.dll (6.1.7601.17514) (-exported- Symbols Loaded)
Linked PDB Filename : shlwapi.pdb
File Version : 6.1.7600.16385 (win7_rtm.090713-1255)
Company Name : Microsoft Corporation
Product Name : Microsoft® Windows® Operating System
Product Version : 6.1.7600.16385

ModLoad: 0000000074eb0000 0000000000060000 C:\Windows\system32\IMM32.DLL (6.1.7601.17514) (-exported- Symbols Loaded)
Linked PDB Filename : wimm32.pdb
File Version : 6.1.7601.17514 (win7sp1_rtm.101119-1850)
Company Name : Microsoft Corporation
Product Name : Microsoft® Windows® Operating System
Product Version : 6.1.7601.17514

ModLoad: 0000000076170000 00000000000cc000 C:\Windows\syswow64\MSCTF.dll (6.1.7600.16385) (-exported- Symbols Loaded)
Linked PDB Filename : msctf.pdb
File Version : 6.1.7600.16385 (win7_rtm.090713-1255)
Company Name : Microsoft Corporation
Product Name : Microsoft® Windows® Operating System
Product Version : 6.1.7600.16385

ModLoad: 00000000723f0000 0000000000021000 C:\Windows\system32\ntmarta.dll (6.1.7600.16385) (-exported- Symbols Loaded)
Linked PDB Filename : ntmarta.pdb
File Version : 6.1.7600.16385 (win7_rtm.090713-1255)
Company Name : Microsoft Corporation
Product Name : Microsoft® Windows® Operating System
Product Version : 6.1.7600.16385

ModLoad: 0000000074d00000 0000000000045000 C:\Windows\syswow64\WLDAP32.dll (6.1.7601.17514) (-exported- Symbols Loaded)
Linked PDB Filename : wldap32.pdb
File Version : 6.1.7600.16385 (win7_rtm.090713-1255)
Company Name : Microsoft Corporation
Product Name : Microsoft® Windows® Operating System
Product Version : 6.1.7600.16385

ModLoad: 0000000074630000 00000000000eb000 C:\Windows\system32\dbghelp.dll (6.1.7601.17514) (-exported- Symbols Loaded)
Linked PDB Filename : dbghelp.pdb
File Version : 6.1.7601.17514 (win7sp1_rtm.101119-1850)
Company Name : Microsoft Corporation
Product Name : Microsoft® Windows® Operating System
Product Version : 6.1.7601.17514

*** Dump of the Process Statistics: ***

- I/O Operations Counters -
Read: 0, Write: 0, Other 0

- I/O Transfers Counters -
Read: 0, Write: 0, Other 0

- Paged Pool Usage -
QuotaPagedPoolUsage: 0, QuotaPeakPagedPoolUsage: 0
QuotaNonPagedPoolUsage: 0, QuotaPeakNonPagedPoolUsage: 0

- Virtual Memory Usage -
VirtualSize: 0, PeakVirtualSize: 0

- Pagefile Usage -
PagefileUsage: 0, PeakPagefileUsage: 0

- Working Set Size -
WorkingSetSize: 0, PeakWorkingSetSize: 0, PageFaultCount: 0

*** Dump of thread ID 3364 (state: Initialized): ***

- Information -
Status: Base Priority: Normal, Priority: Normal, , Kernel Time: 0.000000, User Time: 0.000000, Wait Time: 0.000000

- Unhandled Exception Record -
Reason: Out Of Memory (C++ Exception) (0xe06d7363) at address 0x75EEC41F

- Registers -
eax=003ef064 ebx=000005ad ecx=00000003 edx=00000000 esi=006a8c80 edi=003f8858
eip=75eec41f esp=003ef064 ebp=003ef0b4
cs=0023 ss=002b ds=002b es=002b fs=0053 gs=002b efl=00000212

- Callstack -
ChildEBP RetAddr Args to Child
003ef0b4 00eb3b0f e06d7363 00000001 00000003 003ef0e0 KERNELBASE!RaiseException+0x0
003ef0ec 00e61e34 003ef24c 00f1f65c 2469730c 0000000f wcgrid_beta17_7!DeleteMulticlassModel+0x0
006a8be8 375f3731 44535f32 31765f47 72615400 0000000c wcgrid_beta17_7!boost::archive::detail::iserializer<boost::archive::binary_iarchive,std::vector<bool,std::allocator<bool> > >::load_object_data+0x0
006a9478 006a8ed8 0000000a f0e0d0c0 7f41da54 8c000000 wcgrid_beta17_7!+0x0 SymFromAddr(): GetLastError = '126' SymGetLineFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = '375f3731'
00a3d928 006a9478 ffff0000 00000001 00000002 0001003e wcgrid_beta17_7!+0x0 SymFromAddr(): GetLastError = '126' SymGetLineFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = '006a8ed8'
00a3d92c ffff0000 00000001 00000002 0001003e 00000000 wcgrid_beta17_7!+0x0 SymFromAddr(): GetLastError = '126' SymGetLineFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = '006a9478'
00a3d930 00000000 00000002 0001003e 00000000 00000001 wcgrid_beta17_7!+0x0 SymFromAddr(): GetLastError = '126' SymGetLineFromAddr(): GetLastError = '126' SymGetModuleInfo(): GetLastError = '126' Address = 'ffff0000'

*** Dump of thread ID 2092 (state: Initialized): ***

- Information -
Status: Base Priority: Normal, Priority: Normal, , Kernel Time: 0.000000, User Time: 0.000000, Wait Time: 0.000000

- Registers -
eax=00ea5ed0 ebx=00000000 ecx=00000000 edx=00000000 esi=028dfe70 edi=00000000
eip=7714fd91 esp=028dfe2c ebp=028dfe94
cs=0023 ss=002b ds=002b es=002b fs=0053 gs=002b efl=00000246

- Callstack -
ChildEBP RetAddr Args to Child
028dfe94 75ef4498 00000064 00000000 028dfeb0 00ea5ee4 ntdll!ZwDelayExecution+0x0
028dfea4 00ea5ee4 00000064 028dfebc 75d4336a 00000000 KERNELBASE!Sleep+0x0
028dfeb0 75d4336a 00000000 028dfefc 77169f72 00000000 wcgrid_beta17_7!DeleteMulticlassModel+0x0
028dfebc 77169f72 00000000 718b191d 00000000 00000000 kernel32!BaseThreadInitThunk+0x0
028dfefc 77169f45 00ea5ed0 00000000 00000000 00000000 ntdll!RtlInitializeExceptionChain+0x0
028dff14 00000000 00ea5ed0 00000000 00000000 00000000 ntdll!RtlInitializeExceptionChain+0x0

*** Debug Message Dump ****

*** Foreground Window Data ***
Window Name :
Window Class :
Window Process ID: 0
Window Thread ID : 0

Exiting...

</stderr_txt>
]]>

----------------------------------------

[Dec 14, 2013 1:52:32 AM]

pramo
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Re: Mapping Cancer Markers Beta Test - Version 7.28 [ Issues Thread ]

Techs, hopefully you can look at my machines by account if need be-
I've done multiple suspends resumes for most w/u's, 2, 3 in some cases 4 times.
On this end they all appear to go back to the checkpoint and resume as they should:)

XP, win7, Win2008r2 and standard is my mix.

I had 5 invalids with v7.27 but none so far with these
that said have ~7 pages worth of PV and in progress against 4 pages or valid at the moment between .27 and .28.

Also, fistbump for all you all do- cheers...

----------------------------------------

[Dec 14, 2013 1:56:42 AM]

Rickjb
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Re: Mapping Cancer Markers Beta Test - Version 7.28 [ Issues Thread ]

No Invalids from my many v7.28 WUs, but I think I provoked 1 Error by Suspend/Resume ...

I encountered a running WU that was about to finish, and waited with finger poised on mouse button while its Remaining counted down to zero. Then I struck, suspending it while it was still running, showing 100% Progress and "---" Remaining. When I resumed it, it reverted to about 1m50 remaining. I did not stay to see it finally finish, nor did I record the WU name.

In Results Status we have 1 x Error, right device, about the right runtime:
BETA_ MCM1_ 0000216_ 7351_ 1-- 728 Error 13/12/13 06:17:27 13/12/13 19:20:23 11.94 395.9 / 395.9

Interesting bits of the log:
<message> finish file present too long </message>
...
(4th instance of ...) Commandline = projects/www.worldcommunitygrid.org/wcgrid_beta17_7.28_windows_x86_64 -SettingsFile MCM1_0000216_7351.txt -DatabaseFile dataset-17_72_SDG_v1.txt
[06:02:11] Initializing
[06:02:16] Running
[06:02:16] EvaluateFitnessOfStartingGeneSignatures 1
[06:02:17]: Computing pass 0
[06:04:19] Exiting PermutateGeneSignature
[06:04:19] Writing final output
[06:04:20] Closing Output Stream
[06:04:20] Cleaning up
Result.out = 4439259.000000
Run complete, CPU time: 43091.700625
06:04:20 (4708): called boinc_finish
Commandline = projects/www.worldcommunitygrid.org/wcgrid_beta17_7.28_windows_x86_64 -SettingsFile MCM1_0000216_7351.txt -DatabaseFile dataset-17_72_SDG_v1.txt
[06:05:11] Initializing
[06:05:16] Running
[06:05:16] EvaluateFitnessOfStartingGeneSignatures 1
[06:05:17]: Computing pass 0
Unhandled Exception Detected...
- Unhandled Exception Record -
Reason: Breakpoint Encountered (0x80000003) at address 0x0000000077EF2360
...
The "finish file too long" condition may not occur in the production WUs, which presumably will have much of the debugging output removed. It might be a good idea to check that the release candidate WUs survive such late suspend/resume action, though.

[Dec 14, 2013 3:50:28 PM]

Former Member
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Re: Mapping Cancer Markers Beta Test - Version 7.28 [ Issues Thread ]

Personally, hope the techs take the time to move 7.28 to production, even this weekend. Probably they caught by far the biggest portion of the invalid problem, so what is produced after upgrade will have a whole lot less concern and wasted time, possibly years and it still would be under 5% fail rate [but on 250 years production per day that's a bunch of extra replication. More [low frequency] bugs can be fixed in a later release, with less time-pressure.

[Dec 14, 2013 5:33:23 PM]

branjo
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Re: Mapping Cancer Markers Beta Test - Version 7.28 [ Issues Thread ]

[OT]

SekeRob wrote: ...

edit: Maybe there's Beta fatigue developing... me clients are on a second helping of the 'only 20,000' (which I interpret a 2x20K). None of the first found a wingman yet.

I am not dead yet. Just haven't issues with latest Betas - all are Valids or PVal's wink

NI!

[/OT]

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Crunching@Home since January 13 2000. Shrubbing@Home since January 5 2006

[Dec 14, 2013 6:16:19 PM]

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