Posts by Dr Who Fan

21) Message boards : Number crunching : Stalled downloads (Message 91971)
Posted 14 Mar 2020 by Dr Who Fan
Post:
.... saw that after killing the stuck downloads, BOINC did not imediately try for another. .

I found out that you can't kill the stuck file(s) - you have to kill the task(s) that is that is stuck downloading - otherwise nothing gets downloaded from the project that has one or more files erroring on download.

Last I saw was a post from Mod.Sense 3+ days ago here saying:
I've sent an EMail to David Kim and asked that he look in to it, pointing out that the hung downloads are preventing machines from getting work so they can resume processing
.
22) Message boards : Number crunching : Stalled downloads (Message 91915)
Posted 10 Mar 2020 by Dr Who Fan
Post:
The stalled downloads are back.
File name rb_03_08_17831_17664_ab_t000__h002_robetta.zip

Rosetta@home	rb_03_08_17831_17664_ab_t000__h002_robetta.zip	62.399	1.93 K	00:31:10 - 12:23:13	0.00 Kbps	Download pending (Retry in: 02:47:54), retried: 10


10-Mar-2020 07:32:01 [Rosetta@home] [http] HTTP_OP::init_get(): http://boinc.bakerlab.org/rosetta/download/1cb/rb_03_08_17831_17664_ab_t000__h002_robetta.zip
10-Mar-2020 07:32:01 [Rosetta@home] [http] HTTP_OP::libcurl_exec(): ca-bundle 'C:BOINCca-bundle.crt'
10-Mar-2020 07:32:01 [Rosetta@home] [http] HTTP_OP::libcurl_exec(): ca-bundle set
10-Mar-2020 07:32:01 [Rosetta@home] Started download of rb_03_08_17831_17664_ab_t000__h002_robetta.zip
10-Mar-2020 07:32:02 [Rosetta@home] [http] [ID#44082] Info: Connection 7018 seems to be dead!
10-Mar-2020 07:32:02 [Rosetta@home] [http] [ID#44082] Info: Closing connection 7018
10-Mar-2020 07:32:02 [Rosetta@home] [http] [ID#44082] Info: Trying 128.95.160.156...
10-Mar-2020 07:32:03 [Rosetta@home] [http] [ID#44082] Info: Connected to boinc.bakerlab.org (128.95.160.156) port 80 (#7019)
10-Mar-2020 07:32:03 [Rosetta@home] [http] [ID#44082] Sent header to server: GET /rosetta/download/1cb/rb_03_08_17831_17664_ab_t000__h002_robetta.zip HTTP/1.1

10-Mar-2020 07:32:03 [Rosetta@home] [http] [ID#44082] Sent header to server: Host: boinc.bakerlab.org

10-Mar-2020 07:32:03 [Rosetta@home] [http] [ID#44082] Sent header to server: User-Agent: BOINC client (windows_x86_64 7.16.3)

10-Mar-2020 07:32:03 [Rosetta@home] [http] [ID#44082] Sent header to server: Accept: */*

10-Mar-2020 07:32:03 [Rosetta@home] [http] [ID#44082] Sent header to server: Accept-Encoding: deflate, gzip

10-Mar-2020 07:32:03 [Rosetta@home] [http] [ID#44082] Sent header to server: Accept-Language: en_US

10-Mar-2020 07:32:03 [Rosetta@home] [http] [ID#44082] Sent header to server:

10-Mar-2020 07:32:03 [Rosetta@home] [http] [ID#44082] Sent header to server: alSign0Y0*†HÎ=*†HÎ=B
10-Mar-2020 07:32:03 [Rosetta@home] [http] [ID#44082] Received header from server: HTTP/1.1 200 OK

10-Mar-2020 07:32:03 [Rosetta@home] [http] [ID#44082] Received header from server: Date: Tue, 10 Mar 2020 12:32:06 GMT

10-Mar-2020 07:32:03 [Rosetta@home] [http] [ID#44082] Received header from server: Server: Apache/2.4.18

10-Mar-2020 07:32:03 [Rosetta@home] [http] [ID#44082] Received header from server: Last-Modified: Mon, 09 Mar 2020 02:03:43 GMT

10-Mar-2020 07:32:03 [Rosetta@home] [http] [ID#44082] Received header from server: ETag: "7b8-5a06269a96f3a"

10-Mar-2020 07:32:03 [Rosetta@home] [http] [ID#44082] Received header from server: Accept-Ranges: bytes

10-Mar-2020 07:32:03 [Rosetta@home] [http] [ID#44082] Received header from server: Content-Length: 1976

10-Mar-2020 07:32:03 [Rosetta@home] [http] [ID#44082] Received header from server: Content-Type: application/zip

10-Mar-2020 07:32:03 [Rosetta@home] [http] [ID#44082] Received header from server:

10-Mar-2020 07:32:03 [Rosetta@home] [http] [ID#44082] Received header from server: PK
10-Mar-2020 07:35:08 [Rosetta@home] [http] [ID#44082] Info: Operation too slow. Less than 10 bytes/sec transferred the last 180 seconds
10-Mar-2020 07:35:08 [Rosetta@home] [http] [ID#44082] Info: Closing connection 7019
10-Mar-2020 07:35:08 [Rosetta@home] [http] HTTP error: Timeout was reached
10-Mar-2020 07:35:08 [Rosetta@home] Temporarily failed download of rb_03_08_17831_17664_ab_t000__h002_robetta.zip: transient HTTP error
10-Mar-2020 07:35:08 [Rosetta@home] Backing off 03:06:46 on download of rb_03_08_17831_17664_ab_t000__h002_robetta.zip
23) Message boards : Number crunching : How to get only Rosetta mini ? (Message 91598)
Posted 23 Jan 2020 by Dr Who Fan
Post:
In all the years I have run this project (since May 2006) there NEVER has been any option to select what type of task you want to run.

You can look for yourself... the project preferences page in your Rosetta home page does not have any specific types of tasks to run selection options.
That is where you would find it if there was any way to select specific types of tasks to run options.
24) Message boards : Cafe Rosetta : Sports playbook helps doctors predict cancer patient outcomes (Message 90900)
Posted 10 Jul 2019 by Dr Who Fan
Post:
Sports playbook helps doctors predict cancer patient outcomes

Using in-game win probability techniques, Stanford researchers devised a way to predict a cancer patient’s outcome at any point during treatment. The approach could also inform treatment decisions.
25) Message boards : Number crunching : Merge computers (Message 88652)
Posted 8 Apr 2018 by Dr Who Fan
Post:
You can NOT merge computes that are different Operating Systems (Example: Windows / Linux) EVEN if they are DUAL/MULTI BOOT.
Different Executable(s) and possibly different formatted data input/output files,
26) Message boards : Number crunching : Antminers ? (Message 88570)
Posted 27 Mar 2018 by Dr Who Fan
Post:
NEVER.

Each type of ASIC (Application-specific integrated circuit) "chips" are created for ONE specific type if computation(s) and can NOT be used as a general purpose CPU.

An application-specific integrated circuit (ASIC) /ˈeɪsɪk/, is an integrated circuit (IC) customized for a particular use, rather than intended for general-purpose use. For example, a chip designed to run in a digital voice recorder or a high-efficiency Bitcoin miner is an ASIC. Application-specific standard products (ASSPs) are intermediate between ASICs and industry standard integrated circuits like the 7400 series or the 4000 series.


Antminers are one type of ASIC for "the virtual currency" bit coins.
27) Message boards : Number crunching : Rosetta 4.0+ (Message 88446)
Posted 8 Mar 2018 by Dr Who Fan
Post:
Task CRASHED upon startup: Task# 978918569

Name: PF06353.11_bnd_aivan_SAVE_ALL_OUT_03_09_549478_551_0

Stderr output
<core_client_version>7.9.2</core_client_version>
<![CDATA[
<message>
couldn't start app: CreateProcess() failed - (unknown error)</message>
]]>
28) Message boards : Number crunching : Problems and Technical Issues with Rosetta@home (Message 81289)
Posted 10 Mar 2017 by Dr Who Fan
Post:
Folks! Thanks for your patience and support during this outage. We appreciate the support of the BOINC community! You are an impressive crew! -KEL


Nice to see that things finally got resolved.
29) Message boards : Rosetta@home Science : Windows bug-testing software cracks stem cell programs (Message 78514)
Posted 29 Jul 2015 by Dr Who Fan
Post:
Link to Full article at New Scientist.com

SOFTWARE used to keep bugs out of Microsoft Windows programs has begun shedding light on one of the big questions in modern science: how stem cells decide what type of tissue to become.

Not only do the results reveal that cellular decision-making is nowhere near as complicated as expected, they also raise hopes that the software could become a key tool in regenerative medicine.

“It is a sign of the convergence between carbon and silicon-based life,” says Chris Mason, a regenerative medicine specialist at University College London. “World-class stem cell scientists and a world-class computer company have found common ground. It is work at such interfaces that brings the big breakthroughs.”
30) Message boards : Number crunching : cpu dips down along with network spikes ? (Message 78185)
Posted 5 May 2015 by Dr Who Fan
Post:
How much cache of work do you have?

Or are we talking about something non-BOINC related?

it may be non boinc but it hurts the boinc cpu usage I have 8 gig of ram and typically use about !/2
I just need to get the pics loaded .


  • Have you done a thorough AntiVirus/Malware scan of your PC?
  • Is your internet connection on a Wi-Fi/Wireless USB dongle or a Hard-Wired ethernet port? If it's USB, that can be "stealing a few cycles of CPU resources".


Download Process Explorer, UnZip the exe (procexp.exe) from the download to a folder/directory (preferably to your User folder/directory) on your hard drive and RUN Microsoft/SysInternals Process Explorer (procexp.exe) as Administrator.

Once running, click View, Show Process Tree; click View, Show Unnamed Handles; click View, Show Process From All Users. This will show you EVERY PROCESS RUNNING ON YOUR PC and will help you determine what is stealing CPU cycles when there is network access.

Process Explorer Description:

Ever wondered which program has a particular file or directory open? Now you can find out. Process Explorer shows you information about which handles and DLLs processes have opened or loaded.

The Process Explorer display consists of two sub-windows. The top window always shows a list of the currently active processes, including the names of their owning accounts, whereas the information displayed in the bottom window depends on the mode that Process Explorer is in: if it is in handle mode you'll see the handles that the process selected in the top window has opened; if Process Explorer is in DLL mode you'll see the DLLs and memory-mapped files that the process has loaded. Process Explorer also has a powerful search capability that will quickly show you which processes have particular handles opened or DLLs loaded.

The unique capabilities of Process Explorer make it useful for tracking down DLL-version problems or handle leaks, and provide insight into the way Windows and applications work.
31) Message boards : Number crunching : cpu dips down along with network spikes ? (Message 78171)
Posted 29 Apr 2015 by Dr Who Fan
Post:
How can you be sure Rosetta is the source of the high bandwidth/download reduction in CPU usage?

To post a SCREENSHOT:
1) You FIRST MUST SAVE IT TO YOUR HARD DRIVE as a BMP or JPG file (MS Paint can do that for free)...
2) THEN UPLOAD IT TO AN IMAGE HOSTING SERVICE (such as Photobucket, etc)...
3) THEN POST A LINK IN YOUR MESSAGE TO THE ON-LINE IMAGE using the "img" BBcode tag.
32) Message boards : Cafe Rosetta : Genetically Engineering Almost Anything (Message 78049)
Posted 20 Mar 2015 by Dr Who Fan
Post:
Genetically Engineering Almost Anything

By Tim De Chant and Eleanor Nelsen on Thu, 17 Jul 2014

When it comes to genetic engineering, we’re amateurs. Sure, we’ve known about DNA’s structure for more than 60 years, we first sequenced every A, T, C, and G in our bodies more than a decade ago, and we’re becoming increasingly adept at modifying the genes of a growing number of organisms.

But compared with what’s coming next, all that will seem like child’s play. A new technology just announced today has the potential to wipe out diseases, turn back evolutionary clocks, and reengineer entire ecosystems, for better or worse. Because of how deeply this could affect us all, the scientists behind it want to start a discussion now, before all the pieces come together over the next few months or years. This is a scientific discovery being played out in real time.
33) Message boards : Cafe Rosetta : proteins----- protein research (Message 77714)
Posted 3 Dec 2014 by Dr Who Fan
Post:
http://www.psmag.com/navigation/nature-and-technology/read-dna-need-crack-another-genetic-code-95657/
--- snip ---
Thanks to its simplicity, the genetic code is a powerful tool in our hunt for mutations that cause disease. Unfortunately, it has also led to the genetic equivalent of a drunk looking for his lost keys under the lamppost. Researchers have put much of their effort into looking for disease mutations in those parts of our genomes that we can read with the genetic code—that is, parts that consist of canonical genes that code for proteins. But these genes make up less than two percent of our DNA; much more of our genetic function is outside of genes in the relatively uncharted “non-coding” portions. We have no idea how many disease-causing mutations are in that non-coding portion—for some types of mutations, it could be as high as 90 percent.
34) Message boards : Number crunching : Problems with version 5.96 (Message 53737)
Posted 17 Jun 2008 by Dr Who Fan
Post:
This one failed after almost 81.5 seconds:
Task ID 171496331
Name FRA_t423_CASP8_1G3U_11_IGNORE_THE_RESTt423_3764_7492_0
Workunit 156540555

CPU time 81.46875
stderr out

<core_client_version>6.1.0</core_client_version>
<![CDATA[
<message>
Incorrect function. (0x1) - exit code 1 (0x1)
</message>
<stderr_txt>
# cpu_run_time_pref: 7200
# random seed: 3355787
ERROR:: Exit from: .loop_relax.cc line: 1745

</stderr_txt>

]]>
35) Message boards : Number crunching : minirosetta v1.25 bug thread (Message 53496)
Posted 1 Jun 2008 by Dr Who Fan
Post:
Completed ok but did not receive credit b/c of the "file error"... yet it says credit was granted in the output as noted below.
Same results for my wingman.

Task ID 167779317 Name h004__BOINC_CASP8_ABRELAXt407__IGNORE_THE_REST-S25-7-S3-7--h004_-_3600_642_0
Workunit 153133982
Created 31 May 2008 1:15:51 UTC
Sent 31 May 2008 1:19:51 UTC
Received 31 May 2008 10:29:18 UTC
Server state Over
Outcome Client error
Client state Compute error
Exit status 0 (0x0)
Computer ID 229877
Report deadline 10 Jun 2008 1:19:51 UTC
CPU time 4338.063
stderr out

<core_client_version>6.1.0</core_client_version>
<![CDATA[
<stderr_txt>
# cpu_run_time_pref: 7200
======================================================
DONE :: 1 starting structures 4337.98 cpu seconds
This process generated 1 decoys from 1 attempts
======================================================

BOINC :: Watchdog shutting down...
BOINC :: BOINC support services shutting down...
called boinc_finish

</stderr_txt>
<message>
<file_xfer_error>
<file_name>h004__BOINC_CASP8_ABRELAXt407__IGNORE_THE_REST-S25-7-S3-7--h004_-_3600_642_0_0</file_name>
<error_code>-161</error_code>
</file_xfer_error>


</message>

]]>

Validate state Invalid
Claimed credit 12.2542776836286
Granted credit 12.2542776836286
application version 1.25
36) Message boards : Cafe Rosetta : Asking For Your Help (Message 53337)
Posted 25 May 2008 by Dr Who Fan
Post:
Made my vote for them in this round.
37) Message boards : Number crunching : minirosetta v1.25 bug thread (Message 53336)
Posted 25 May 2008 by Dr Who Fan
Post:
Task failed for both users.

Task ID 166233408
Name t0391_BOINC_LOOP_IGNORE_THE_REST-S25-10-S3-5--1a19A-_3412_2_1
Workunit 151365943
Server state Over
Outcome Client error
Client state Compute error
Exit status 1 (0x1)
Computer ID 229877
CPU time 0
stderr out

<core_client_version>6.1.0</core_client_version>
<![CDATA[
<message>
Incorrect function. (0x1) - exit code 1 (0x1)
</message>
<stderr_txt>
ERROR: Option matching -description_file not found in command line top-level context

</stderr_txt>

]]>

Validate state Invalid
Claimed credit 0
Granted credit 0
application version 1.25
38) Message boards : Cafe Rosetta : Asking For Your Help (Message 53114)
Posted 17 May 2008 by Dr Who Fan
Post:
Got my vote also!
Wishing them best of luck on winning the grand prize and a possible cure found soon for Lupus.
39) Message boards : Number crunching : Looking for some help please- decreasing credit per unit (Message 53113)
Posted 17 May 2008 by Dr Who Fan
Post:
I too am seeing a drop in granted points and only getting credit for on average about 1/2 of what my 2 PC's claim.
Rosetta is very low on the credit scale for credit/hr.
40) Message boards : Number crunching : minirosetta v1.19 bug thread (Message 53112)
Posted 17 May 2008 by Dr Who Fan
Post:
Anyone else seen this yet?

I have a single incidence of minirosetta v1.19 using both "cores" of my Pentium 4 with Hyper Thread.
It is not following the BOINC rules to use only 1 core/app/cpu.

It is currently running:
Task ID 164060225
Task Name h003__BOINC_ABRELAX_IGNORE_THE_REST-S25-5-S3-3--h003_-_3321_121_0


Previous 20 · Next 20



©2024 University of Washington
https://www.bakerlab.org