Posts by Plomos

1) Message boards : RALPH@home bug list : Rosetta 4.12+ (Message 6709)
Posted 8 Apr 2020 by Plomos
Post:
So I had the same error again on two more units that I pulled only a few hours ago from the server

<core_client_version>7.16.1</core_client_version>
<![CDATA[
<stderr_txt>
command: ../../projects/ralph.bakerlab.org/rosetta_4.15_i686-pc-linux-gnu -run:protocol jd2_scripting -parser:protocol predictor_v11_boinc--fuse--covid_spike_design_boinc_v1.xml @flags_Junior_HalfRoid_vs_COVID-19_test1 -in:file:silent 6np3ll6z_Junior_HalfRoid_vs_COVID-19_test1.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 6np3ll6z_Junior_HalfRoid_vs_COVID-19_test1.zip @6np3ll6z_Junior_HalfRoid_vs_COVID-19_test1.flags -nstruct 10000 -cpu_run_time 3600 -watchdog -boinc:max_nstruct 600 -checkpoint_interval 120 -database minirosetta_database -in::file::zip minirosetta_database.zip -boinc::watchdog -run::rng mt19937 -constant_seed -jran 3983671
Starting watchdog...
Watchdog active.
Starting watchdog...
Watchdog active.
Starting watchdog...
Watchdog active.
BOINC:: CPU time: 18299.9s, 14400s + 3600s[2020- 4- 8  0:53:20:] :: BOINC 
WARNING! cannot get file size for default.out.gz: could not open file.
Output exists: default.out.gz Size: -1
InternalDecoyCount: 0 (GZ)
-----
0
-----
Stream information inconsistent.
Writing W_0000001
======================================================
DONE ::     1 starting structures  18299.9 cpu seconds
This process generated      1 decoys from       1 attempts
======================================================
00:53:20 (8724): called boinc_finish(0)

</stderr_txt>
]]>


It seems that this happens both here at Ralph and at main rosetta when the system sends me 32 bit tasks instead of 64bit ones. On rosetta the 64 bit tasks run as they should but the 32 bit 4.12 as well as 4.15 here that are 32 bit do not run right and only produce one decoy after hours of work. Hopefully this can be fixed
2) Message boards : RALPH@home bug list : Rosetta 4.12+ (Message 6682)
Posted 6 Apr 2020 by Plomos
Post:
core_client_version>7.16.1</core_client_version>
<![CDATA[
<stderr_txt>
command: ../../projects/ralph.bakerlab.org/rosetta_4.14_i686-pc-linux-gnu -run:protocol jd2_scripting -parser:protocol predictor_v11_boinc--fuse--il1r_design_boinc_v1.xml @flags_il1r2 -in:file:silent 2cl4lm5k_Mini_Protein_binds_IL1R_COVID-19_test2.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 2cl4lm5k_Mini_Protein_binds_IL1R_COVID-19_test2.zip @2cl4lm5k_Mini_Protein_binds_IL1R_COVID-19_test2.flags -nstruct 10000 -cpu_run_time 3600 -watchdog -boinc:max_nstruct 600 -checkpoint_interval 120 -database minirosetta_database -in::file::zip minirosetta_database.zip -boinc::watchdog -run::rng mt19937 -constant_seed -jran 3983067
Starting watchdog...
Watchdog active.
BOINC:: CPU time: 18365.7s, 14400s + 3600s[2020- 4- 5 19: 6:15:] :: BOINC 
WARNING! cannot get file size for default.out.gz: could not open file.
Output exists: default.out.gz Size: -1
InternalDecoyCount: 0 (GZ)
-----
0
-----
Stream information inconsistent.
Writing W_0000001
======================================================
DONE ::     1 starting structures  18365.7 cpu seconds
This process generated      1 decoys from       1 attempts
======================================================
19:06:15 (101755): called boinc_finish(0)

</stderr_txt>
]]>


Not sure about the warning at the top and the fact that it only created one decoy in the span of several hours
3) Message boards : RALPH@home bug list : Rosetta 4.12+ (Message 6681)
Posted 5 Apr 2020 by Plomos
Post:
Supporting graphics for linux is tough. The graphics uses OpenGL and GLUT but depend on some dynamic libs that may or may not be available among different linux versions. If anyone has suggestions for more general graphics support for linux, I'm all ears.


Ok thanks, I'm glad that it isn't an issue with my machine. So far the current 4.14 task is making good progress after 3.5 hours of running. We'll see what the results end up like when it's done
4) Message boards : RALPH@home bug list : Rosetta 4.12+ (Message 6673)
Posted 5 Apr 2020 by Plomos
Post:
Hi,

I saw a post over on the main rosetta board saying that you guys needed help testing things over here so I came over. I am running Fedora 31 system that has been fully updated so kernel 5.5.13-200.fc31.x86_64. I am running BOINC as it is in the fedora repos so version 7.16.1. I am using KDE as a DE in case that is relevant.

I grabbed a Rosetta 4.14 task and at least here within the first ten minutes it seems to be running fine except for the graphics. The option to view the graphics is available, but when I click on it the graphics window does not open at all. Is there a special dependancy that I need to be able to see the graphics for a task? Over the last couple of weeks I have run 4.07, and 4.08 tasks and could not access graphics from those either to be able to see how many decoys I was managing during the run. I will keep an eye on the WU for any other issues, but thought it odd the graphics do not show.






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