Posts by Keith T.

1) Message boards : Number crunching : Peer certificate cannot be authenticated with given CA certificates (Message 97201)
Posted 3 Jun 2020 by Keith T.
Post:
This is totally off topic, but it might be useful.

There are at least 4 different types of WCG tasks, some are more memory, CPU and storage intensive than others.

It's probably best to only use about 50% of your available Cores, depending on what else you are doing, I would certainly leave at least 1 or 2 unused on an 8 core device for best performance.
2) Message boards : Number crunching : Peer certificate cannot be authenticated with given CA certificates (Message 97200)
Posted 3 Jun 2020 by Keith T.
Post:
The notification bar or area is part of Android, not part of BOINC
It's the bit at the top of the screen where Battery level, Clock, WiFi indicator, Signal strength, etc. are shown.
BOINC appears there when it is running, but on 7.16.3 you can get rid of the notification when Suspended; On 7.16.5 you can't get rid of the notification without Force Stopping the app.
3) Message boards : Number crunching : Peer certificate cannot be authenticated with given CA certificates (Message 97192)
Posted 3 Jun 2020 by Keith T.
Post:
Good choice. I only found 7.16.3 and while it has some extra settings to use, it seems to fall out of memory a lot and even when it's running it seems to suspend itself when it's not the foreground task.
Not recommended at all. Having adjusted my Android settings, I'm thinking of downgrading again


It's working perfectly on my phone. Only one tiny problem - if you expand a task for details, you cannot unexpand it. But so what, I can just select "tasks" view again and it collapses them.

I'd much rather use the very latest version (Beta or not) of every program.

But you would probably be fine downgrading to the official version now, since LHC and Rosetta (and presumably Numberfields) have fixed it at their end.


The current non Beta version of BOINC for Android in Google Play is 32bit. 7.4.53, released in July 2016
The Beta version available for Google play Beta testers is 64bit compatible, 7.16.3, last updated in October 2019
There is a later Beta version which I am currently using, 7.16.5 that is no longer available from the BOINC website, OR Google Play.
I got the latest Beta from ApkPure. It fixes the bug of collapsing the Tasks list, but it has other bugs, including the inability to remove the app from the Notification bar, even if Suspended.

If you are running a 64bit version of Android on 64bit hardware, then you may be better off using 7.16.3
4) Message boards : Number crunching : Peer certificate cannot be authenticated with given CA certificates (Message 97130)
Posted 1 Jun 2020 by Keith T.
Post:
Thanks, I wasn't aware of that, as I currently have 3 LHC, and 6 WCG tasks on my 8 core tablet.
I currently have 2 of the LHC tasks waiting to Report, they Uploaded ok.
5) Message boards : Number crunching : Peer certificate cannot be authenticated with given CA certificates (Message 97128)
Posted 1 Jun 2020 by Keith T.
Post:
BOINC 7.16.5 for Android is still available from some APK sites including APKpure.

It Doesn't fix the certificate problem.

I have been using it for about a week, it still has other bugs, but it does fix one of the bugs in 7.16.3
6) Message boards : Number crunching : Garbage in Garbage out and task names? (Message 96661)
Posted 20 May 2020 by Keith T.
Post:
You mean like this https://boinc.bakerlab.org/rosetta/result.php?resultid=1182994311 yournamehere_out_file_0507_d1a75a_v6_4AS_pb_ASW0_TERM20_length45_0075_fragments_abinitio_SAVE_ALL_OUT_929961_1147_0
It appears to have Validated ok.
I was a bit concerned when I first saw the filename.
7) Questions and Answers : Wish list : Dark Theme please. (Message 96448)
Posted 13 May 2020 by Keith T.
Post:
Would it be possible to update the forum software to the latest BOINC version, and possibly add a Dark Theme option to improve readability ?

I know some other projects eg SETI have this.

It might be more user friendly for many older users that have difficulty reading Small Grey text on a White background, for some reason the default font size in Rosetta seems to be Small instead of Normal, and the Colour/Color seems to be Grey instead of Black !
8) Questions and Answers : Web site : Sent Private Messages? (Message 96447)
Posted 13 May 2020 by Keith T.
Post:
This is a frequently requested feature on many BOINC projects, but I don't think it is yet available in the BOINC server code.

As a workaround, you could just add your own ID to the list of recipients, with a , to separate.
9) Questions and Answers : Preferences : How to Limit CPU cores ? (Message 96445)
Posted 13 May 2020 by Keith T.
Post:
I've recently started running Rosetta again, after several years away.

I'm running it on some fairly low spec devices, https://boinc.bakerlab.org/rosetta/show_host_detail.php?hostid=4341280 and https://boinc.bakerlab.org/rosetta/show_host_detail.php?hostid=4087082

I recently updated my settings for LHC@home, and was pleasantly surprised to see that I can restrict how many Cores the project will use https://lhcathome.cern.ch/lhcathome/prefs.php?subset=project but I can't see a similar option for Rosetta.

Could someone help me with this please ?
10) Message boards : Number crunching : minirosetta_database directory in slot (Message 95236)
Posted 23 Apr 2020 by Keith T.
Post:
Some other projects e.g. SETI, have been using this feature of BOINC for at least 15 years, so I don't think a new client would be required.
11) Message boards : Number crunching : minirosetta_database directory in slot (Message 95235)
Posted 23 Apr 2020 by Keith T.
Post:
The directory structure has to be maintained and I am not aware of any way to create a directory in the project directory and keep it sticky. Can we extract into the project directory without the client cleaning it up? Any solution will require an application update, and to my knowledge a solution can be developed but would most likely require a BOINC client update.


== File references ==

The BOINC client uses the following directory structure:



Each project has its own '''project directory''' where its file reside.
The names of files in this directory are physical names.

Each job executes in its own '''slot directory''' ({{{slots/0}}}, etc.).
The slot directory contains links to the job's input and output files.
The name of each link is a '''logical name'''.
(These links aren't symbolic or hard links, because Windows doesn't have them;
rather, they're XML files containing the path of the file in the project directory).
Applications call a BOINC API function [BasicApi#filenames boinc_resolve_filename()]
to map logical names to physical names prior to opening them.

This architecture provides two advantages:

* Multiple concurrent jobs can access a given file without having separate copies of it.
* Applications can contain hardwired (logical) file names, but can be run against different physical files.

The way a job uses a file is called a '''file reference''',
and is specified in [JobTemplates job input and output templates].
A file reference includes the logical name.
It can also specify a '''copy file''' attribute;
if present, the linking mechanism described above is not used;
rather, the BOINC client copies the file from the project directory to
the slot directory before running the application (for input files)
or copies the file from the slot directory to the project directory
after running the application (for output files).
This mechanism is needed for
[WrapperApp legacy applications]
that don't use BOINC's API functions.


https://boinc.berkeley.edu/trac/wiki/BoincFiles
12) Message boards : Number crunching : minirosetta_database directory in slot (Message 95233)
Posted 23 Apr 2020 by Keith T.
Post:
Indeed this is not efficient but there currently is no easy workaround that we know of since Rosetta is dependent on the database directory structure. If anyone knows of an easy workaround, I'm all ears. The Rosetta application depends on the database directory structure. This database holds all the required score, chemical, sampling, rotamer, etc. parameters and libraries that are the backbone of all the computations and a result of many years of research and development. These parameters may or may not change with application updates. For example, for the COVID-19 specific jobs, we had to significantly increase the size of the database to include an improved local protein structure fragment library in addition to side chain motif libraries to enable the interface design protocol. These are parameters/libraries that have been developed and continue to be developed in the lab through careful analysis and research of native protein structures and molecular structures in general.


How about this https://boinc.berkeley.edu/trac/wiki/BoincFiles ?

You might also like to have a look at the suggestion that I made on RALPH nearly 12 years ago
https://ralph.bakerlab.org/forum_thread.php?id=395#4109
13) Message boards : Number crunching : Rosetta has busted Disk Quota by nearly 400% (Message 94256)
Posted 12 Apr 2020 by Keith T.
Post:
Thanks for the replies.

I am using local preferences on the computer.
Both web preferences and local preferences have a Minimum free Disk space setting of 1GB
The computer is a small Windows 10 netbook/ convertible with only 28.5 GB HDD storage

I managed to complete the 3 Rosetta tasks onboard alongside some Einstein tasks.

I set the maximum run time to 2 hours in order to get rid of them as quickly as possible.

I think part of the problem may have been the Swap or Page file size with 3 tasks running

Free HDD space has now recovered to almost 2.5 GB
14) Message boards : Number crunching : Rosetta has busted Disk Quota by nearly 400% (Message 94159)
Posted 11 Apr 2020 by Keith T.
Post:
I am a returning user to Rosetta

I'm aware that some of the tasks can be both memory and storage intensive

On my Windows machine, I instructed BOINC to leave at least 1GB free, Use no more than 2.7GB

My current usage by BOINC projects is now 3.57GB, of which 3.54GB is Rosetta

Free, Not available to BOINC 306MB

Used by other programs 24.65GB

At one point free disk space was down to 200MB, this has recovered slightly since I suspended 1 of 3 Rosetta tasks.

So Rosetta has broken the 2.7GB limit by about 0.9GB, and the 1GB limit by about 700MB

Is this a Rosetta or BOINC problem ?
15) Questions and Answers : Getting started : Accidentally created second account. (Message 94006)
Posted 9 Apr 2020 by Keith T.
Post:
Hi

I have somehow managed to create a different Rosetta account for one of my Android devices

My original account ID is https://boinc.bakerlab.org/rosetta/show_user.php?userid=150379

My new account is 2088179 https://boinc.bakerlab.org/rosetta/show_user.php?userid=2088179

I have tried to login to the new account, but I'm not sure which email address I used to create it, it's either my original BOINC Yahoo mail address, or my Gmail address

Help please ?
16) Questions and Answers : Getting started : Combining accounts (Message 94005)
Posted 9 Apr 2020 by Keith T.
Post:
Hi, I also have the same question
17) Questions and Answers : Android : I can't see my new device after several days. (Message 94003)
Posted 9 Apr 2020 by Keith T.
Post:
https://boinc.bakerlab.org/rosetta/results.php?hostid=3789556 is the ID of my missing device
18) Questions and Answers : Android : I can't see my new device after several days. (Message 94002)
Posted 9 Apr 2020 by Keith T.
Post:
Hi

I recently returned to Rosetta now that SETI has almost run out of work.

I attached 2 computers, 1 Windows, 1 Android

My other computers are visible, including another Android box that last contracted this project in 2018, but I can't see this machine on Rosetta

Help please, is there something that I can look for in BOINC Manager event log that might help me find this device in my online account ?
19) Message boards : Number crunching : Lack of communication from project (Message 73435)
Posted 14 Jul 2012 by Keith T.
Post:
Lack of communication is still an issue over at RALPH@home.

I have posted 2 questions in the last 3 weeks on their message boards, with no replies from project staff.

Is RALPH still supported by Rosetta@home ?

Keith.
20) Message boards : Number crunching : RALPH down a couple of days (Message 62865)
Posted 10 Aug 2009 by Keith T.
Post:
Now even the web server is down, and it does not respond to pings either. As it should now be Monday morning in west coast USA I hope they will be able to fix this soon.

Keith


Next 20



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