Rosetta 4.12+

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WezH

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Message 6773 - Posted: 30 Apr 2020, 19:19:06 UTC - in response to Message 6749.  

Even with 4.17, after few seconds, i have these errors, like 4.15 (only two wus, however):
<message>
upload failure: <file_xfer_error>
<file_name>Mini_Protein_binds_IL6R_COVID-19_test3_SAVE_ALL_OUT_IGNORE_THE_REST_5aj5gu8j_32_397_0_r1474112397_0</file_name>
<error_code>-240 (stat() failed)</error_code>
</file_xfer_error>
</message>


Same here, 9 errors from 184 tasks
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Message 6781 - Posted: 1 May 2020, 8:55:16 UTC

4.20 still failing this way
https://ralph.bakerlab.org/workunit.php?wuid=4518120

<core_client_version>7.14.2</core_client_version>
<![CDATA[
<stderr_txt>
command: ../../projects/ralph.bakerlab.org/rosetta_4.20_x86_64-pc-linux-gnu -run:protocol jd2_scripting -parser:protocol predictor_v11_boinc--fuse--il1r_design_boinc_v1_mod.xml @flags_il6r2 -in:file:silent Mini_Protein_binds_IL6R_COVID-19_test3_SAVE_ALL_OUT_IGNORE_THE_REST_0cj9pv7f.silent -in:file:silent_struct_type binary -silent_gz -mute all -out:file:silent_struct_type binary -out:file:silent default.out -in:file:boinc_wu_zip Mini_Protein_binds_IL6R_COVID-19_test3_SAVE_ALL_OUT_IGNORE_THE_REST_0cj9pv7f.zip @Mini_Protein_binds_IL6R_COVID-19_test3_SAVE_ALL_OUT_IGNORE_THE_REST_0cj9pv7f.flags -nstruct 10000 -cpu_run_time 3600 -boinc:max_nstruct 5000 -checkpoint_interval 120 -database minirosetta_database -in::file::zip minirosetta_database.zip -boinc::watchdog -boinc::cpu_run_timeout 36000 -run::rng mt19937 -constant_seed -jran 3976176
Using database: database_357d5d93529_n_methyl/minirosetta_database
======================================================
DONE :: 1 starting structures 1201 cpu seconds
This process generated 1 decoys from 1 attempts
======================================================
BOINC :: WS_max 0
06:39:06 (90949): called boinc_finish(0)

</stderr_txt>
<message>
upload failure: <file_xfer_error>
<file_name>Mini_Protein_binds_IL6R_COVID-19_test3_SAVE_ALL_OUT_IGNORE_THE_REST_0cj9pv7f_32_771_1_r543859209_0</file_name>
<error_code>-161 (not found)</error_code>
</file_xfer_error>
</message>
]]>
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Profile Conan
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Message 6785 - Posted: 1 May 2020, 12:36:47 UTC

Tried running a couple of 4.20 work units, but they both failed after less than 1 1/2 minutes with the error 'Process got Signal 11"
This also happened with my wingman he got the same error.

Conan
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Message 6825 - Posted: 14 May 2020, 5:52:39 UTC

All errors after few seconds
5154586
5154504
5154616

- Unhandled Exception Record -
Reason: Access Violation (0xc0000005) at address 0x00007FF6E71C8316 read attempt to address 0xFFFFFFFF


- Unhandled Exception Record -
Reason: Access Violation (0xc0000005) at address 0x000001C8B3712B30


- Unhandled Exception Record -
Reason: Access Violation (0xc0000005) at address 0x0000000900000008


etc...
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Message 6826 - Posted: 14 May 2020, 5:54:57 UTC - in response to Message 6825.  

All of the ones just released, like these: test_ff_sym_c3_21res_c.127.43_0001_I_21_3_hit_CYS_GLU_4_5_4_cell033_0001_SAVE_ALL_OUT_47_105_1
Access Violation, even just a single WU running on its own with plenty of memory.
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Message 6827 - Posted: 14 May 2020, 18:38:42 UTC - in response to Message 6826.  

More of the same: test_ff_sym_c3_21res_c.127.43_0001_I_21_3_hit_CYS_GLU_4_5_4_cell033_0001_SAVE_ALL_OUT_47_357_1
All Access Violation again.
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Message 6828 - Posted: 27 May 2020, 19:20:37 UTC - in response to Message 6827.  

Today's tasks are a fail with file upload error on Windows at least.
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Message 6829 - Posted: 28 May 2020, 15:45:56 UTC
Last modified: 28 May 2020, 15:46:35 UTC

I only got one recent Ralph WU but it didn't fare so well on my OSX machine, or on another Linux machine that also tried.

https://ralph.bakerlab.org/workunit.php?wuid=4615810
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Message 6830 - Posted: 28 May 2020, 21:45:07 UTC

Failed for BOTH me and the wingman
Task 5155194
Outcome Computation error
Client state Compute error
Exit status 0 (0x00000000)


Stderr output
<core_client_version>7.16.3</core_client_version>
<![CDATA[
<stderr_txt>
command: projects/ralph.bakerlab.org/rosetta_4.20_windows_x86_64.exe @jml20200526_358_A.flags -nstruct 10000 -cpu_run_time 3600 -boinc:max_nstruct 5000 -checkpoint_interval 120 -mute all -database minirosetta_database -in::file::zip minirosetta_database.zip -boinc::watchdog -boinc::cpu_run_timeout 36000 -run::rng mt19937 -constant_seed -jran 3960217
Using database: database_357d5d93529_n_methylminirosetta_database
======================================================
DONE :: 66 starting structures 28483.3 cpu seconds
This process generated 66 decoys from 66 attempts
======================================================
BOINC :: WS_max 1.09564e+09
15:04:23 (4612): called boinc_finish(0)

</stderr_txt>
<message>
upload failure: <file_xfer_error>
<file_name>jml20200526_358_A_54_34_1_r1983490202_0</file_name>
<error_code>-240 (stat() failed)</error_code>
</file_xfer_error>

</message>
]]>


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Message 6831 - Posted: 30 May 2020, 20:33:37 UTC
Last modified: 30 May 2020, 20:34:02 UTC

This seems like to be the same problems affecting several BOINC projects which have switched to SSL uploads and downloads.

Rosetta@home is one of those affected.

It's caused by an expired entry in the ca-bundle.crt file that's part of BOINC.

If that's the cause, it will take an update to that file to fix the problem by removing the expired entry.

That may, in turn, require a new version of BOINC for those users who don't know how to modify the files that are part of BOINC by any means other than updating BOINC.

https://boinc.bakerlab.org/rosetta/forum_thread.php?id=14006

https://boinc.berkeley.edu/forum_thread.php?id=13758&sort=5
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Message 6857 - Posted: 3 Aug 2020, 10:45:40 UTC
Last modified: 3 Aug 2020, 10:46:58 UTC

Bestort - Best Home Security Products is an amazing, easy to set up CCTV camera system. Composed of cameras and a module, it is a wireless system that is intuitively configured to turn your home into a smart home and increase security. Check out my Bestort camera review and see if Blink can bring you peace of mind!
https://bestort.com/
Blink offers two different models. There is a Bestort - Best Home Security Productsinternal security camera that I tested. You will also find Blink XT Indoor / Outdoor HD Security Camera. Blink XT adds features like HD quality and IR night vision. I checked out vanilla Bestort. More precisely, my test block was a three-camera system. In the box I found three Blink cameras and a sync module. Flashing is available in one, two, three and five camera configurations. Bestort XT is available as a single or triple chamber system. But the standalone Blink and Blink XT cameras are available for purchase. Likewise, the Blink sync module is available separately.
In addition to the Bestort and camera sync module, you'll find mounting brackets and included screws, as well as 3M adhesive strips for non-intrusive installation.
https://bestort.com/
As hardware, you will find a 720p camera with a 110-degree lens. There is a motion sensor and a micro USB slot.
Inner camera flashing: setting
In my review of the Bestort, I found that Blink is extremely intuitive. Each box contains a brochure with instructions for use. It's as easy as downloading an app, setting up a sync module, installing cameras, and connecting wirelessly. Thus, Bestort is a stunning home security monitor that is perfect for everyone from power users to smart beginners.

First, go to your preferred app store and download the Bestort app. It's available for free on the Google Play and iTunes stores. Sorry Windows Phone users, out of luck. There is also no Ubuntu phone support, but Canonical has canceled Ubuntu Touch so this should come as no surprise. After downloading the Blink app, you will need to create an account. Again, it's free and you don't even need to verify your account to get started.
After downloading the app and setting up your account, just plug in the sync module. This connects to the included wall adapter. But since the power cable of the sync module uses a USB cable, it must be compatible with any USB port. Of course, you need to ensure the correct power consumption. However, I doubt it is that high. Then add your sync module to your Blink app. This can be done by manually entering the serial number or by scanning the QR code on the back of the device. When added as a device in the Bestort app.
Then add your sync module to your Blink app. This can be done by manually entering the serial number or by scanning the QR code on the back of the device. When added as a device in the Bestort app.
https://bestort.com/
Once it's added as a device to the Blink app, connect to the sync module like a Wi-Fi network. Blink will then prompt you to find the Wi-Fi network to which you want to connect the Blink sync module. Find it in the list of Wi-Fi networks and enter your password.
You should now be connected to the sync module. Give it a name such as home, office, or work.
Next in our Bestort - Best Home Security Products review we will connect our cameras. Since you've connected your sync module to the Blink app, you'll see a camera icon and the words “Add Blink Camera” at the bottom. Click on it and you will see a screen with Blink and Blink XT next to it. Then select the camera you are configuring. In my case, it was Blink. Now that you have selected your camera, you will see a short video explaining how to set it up.

Click on it and you will see a screen with Blink and Blink XT next to it. Then select the camera you are configuring. In my case, it was Blink. Now that you have selected your camera, you will see a short video explaining how to set it up.
Now that you have selected your camera, you will see a short video explaining how to set it up.
When you're ready, you will need to enter your serial number again or scan the QR code. After connecting to the camera, you will click the screenshot button to take a picture with your camera. This allows you to view the camera's angle of view and line of sight as well as connectivity. If you're happy with this, leave the camera as it is, or move it.
With your neatly labeled rooms, you'll be able to see them conveniently on the home screen in your Blink camera app. Then you can watch live video or take a screenshot. You can even include audio in the video. I found the video quality to be excellent, even in low light conditions. If you have multiple modules in multiple locations, you can view them in the dropdown. Although I only have one block set up as Home, it's easy to use the dropdown to switch to a different location. This way, you can use the Blink camera app to monitor multiple locations such as your home and office.
For each camera, you can set different options and view settings. Clicking on the gear above each camera gives you some information on battery life as well as temperature. Notably, this is in beta. But you can set temperature alerts. For example, a hot or cold warning if the temperature drops below a certain temperature. There is also a motion detection function. Most consumer-oriented home security systems do not keep a permanent record. Instead, they offer motion detection recording. Thus, you can set the trigger time, sensitivity and clip length.

The sound and video quality is excellent. I was impressed with the various settings. You can unwind an array of Blink cameras in less than an hour. I set up mine in less than half an hour. This is with rearranging multiple cameras. I love the simplicity of both hardware and software. Blink for home provides an intuitive interface with elegant hardware and software for a reasonable $ 100 price tag.
However, experienced users may leave a lot to be desired. You won't find more advanced settings like sound alerts and third party integrations. Likewise, although you can take screenshots and view live video, there is no on-demand recording. Also, local storage is not available. While this is a fantastic wireless security system for a smart home, you won't find features like scheduled arming and disarming or two-way audio.
However, the Blink wireless home security camera is phenomenally priced and the most intuitive security camera available. The software is stable and I appreciate its simplicity. Ultimately, in my review of the Blink camera, I found that Blink is best for both beginners and experienced smart home users. Advanced users will surely love Blink. However, the lack of certain planning features and aspects of smart home automation can get in the way of advanced smart home gurus.

Blink for home is an amazing wireless security camera. The price is more than reasonable and I like the modular setup. Even though my review unit came with three internal cameras and a sync module, it's easy to add more cameras. I will probably pick up a Blink XT for use outside the door. The hardware is reliable and of high quality, especially for the price. There isn't a ton of what it does other than basic monitoring. But especially considering its thermal performance, which is currently in beta, look forward to future updates. For basic monitoring, this is a stunning wireless indoor surveillance camera.https://bestort.com/
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Message 6860 - Posted: 10 Aug 2020, 3:53:46 UTC

A minor problem with the last batch of tasks - they arrive showing an estimated runtime of about 1 hour, but are now approaching an actual 6 hours.
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Message 6876 - Posted: 6 Sep 2020, 20:35:15 UTC

All validated, but errors:
[ ERROR ]: Caught exception:


File: ......srcprotocolsmotif_graftingmoversMotifGraftMover.cc:537
For this scaffold there are not suitable scaffold grafts within your constrains
------------------------ Begin developer's backtrace -------------------------
BACKTRACE:
------------------------- End developer's backtrace --------------------------


AN INTERNAL ERROR HAS OCCURED. PLEASE SEE THE CONTENTS OF ROSETTA_CRASH.log FOR DETAILS.
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Message 6895 - Posted: 25 Sep 2020, 9:19:44 UTC

5188942

<core_client_version>7.16.7</core_client_version>
<![CDATA[
<message>
(unknown error) - exit code 194 (0xc2)</message>
<stderr_txt>
command: projects/ralph.bakerlab.org/rosetta_4.20_windows_x86_64.exe -run:protocol jd2_scripting -parser:protocol boinc_grafting_v2.xml @vegf_site2_graft_bcov_flags -in:file:silent vegf_site2_test_graft_v1_SAVE_ALL_OUT_IGNORE_THE_REST_6yn8gy8p.silent -in:file:silent_struct_type binary -silent_gz -mute all -silent_read_through_errors true -out:file:silent_struct_type binary -out:file:silent default.out -in:file:boinc_wu_zip vegf_site2_test_graft_v1_SAVE_ALL_OUT_IGNORE_THE_REST_6yn8gy8p.zip @vegf_site2_graft_bcov_612.flags @vegf_site2_test_graft_v1_SAVE_ALL_OUT_IGNORE_THE_REST_6yn8gy8p.flags -nstruct 10000 -cpu_run_time 3600 -boinc:max_nstruct 5000 -checkpoint_interval 120 -database minirosetta_database -in::file::zip minirosetta_database.zip -boinc::watchdog -boinc::cpu_run_timeout 36000 -run::rng mt19937 -constant_seed -jran 3929128
Using database: database_357d5d93529_n_methylminirosetta_database

</stderr_txt>
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Message 6901 - Posted: 10 Oct 2020, 6:58:09 UTC

A LOT of validation errors (over 100 wus)
5194488
5194492
etc
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Message 6917 - Posted: 15 Dec 2020, 11:40:07 UTC

Plenty of errors:
ERROR: Cannot find file '-extra_res_fa or minirosetta_database/chemical/residue_type_sets/fa_standard/residue_types/-extra_res_fa'
ERROR:: Exit from: src/core/chemical/residue_io.cc line: 144
BOINC:: Error reading and gzipping output datafile: default.out

Tasks:
https://ralph.bakerlab.org/result.php?resultid=5219971
https://ralph.bakerlab.org/result.php?resultid=5219975
https://ralph.bakerlab.org/result.php?resultid=5220383
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Message 6918 - Posted: 15 Dec 2020, 12:18:26 UTC
Last modified: 15 Dec 2020, 13:00:06 UTC

The current tasks are running fine on this machine. On my other, the tasks seem to fail at once. Machines are almost identical hardware wise, have Windows 8.1 x64 as the OS. Other projects are not having trouble. Am I missing some system software component?
Wave upon wave of demented avengers march cheerfully out of obscurity into the dream.
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Message 7056 - Posted: 12 Sep 2021, 6:26:25 UTC

New kind of app ("5nvx_graft_buwei"), new error:

ERROR: [ERROR] Unable to open constraints file: m_HHH_b2_06446_000000083_0001_1_18_H_._HHH_b1_01336_0001_1_0001.MSAcst
ERROR:: Exit from: ......srccorescoringconstraintsConstraintIO.cc line: 457
BOINC:: Error reading and gzipping output datafile: default.out
07:57:08 (7768): called boinc_finish(1)
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