Win10 64bit machine


ERROR: DPHE:N_Methylation:AcetylatedNtermConnectionProteinFull doesnt have connection at N
ERROR:: Exit from: src/core/conformation/Conformation.cc line: 1756
BOINC:: Error reading and gzipping output datafile: default.out
19:53:06 (7448): called boinc_finish(1)

Today still the same error.
Please, stop this batch of 6.06

ERROR: Unable to find desired residue 'LEU' with variant 'SIDECHAIN_CONJUGATION'. Attempted to add target variant(s) to ResidueType using both ResidueType base name 'LEU' and base ResidueType. Was attempting to add new variant type 'SIDECHAIN_CONJUGATION'
ERROR:: Exit from: src/core/chemical/ResidueTypeSet.cc line: 980
BOINC:: Error reading and gzipping output datafile: default.out
18:58:34 (10560): called boinc_finish(1)

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All my 113 rosetta beta 6.06 tasks errored but error messages are different

command: projects/boinc.bakerlab.org_rosetta/rosetta_beta_6.06_windows_x86_64.exe @hal_8a_p_hal_8aa_3jp6467_d57_1_0001_1.flags -nstruct 10000 -cpu_run_time 28800 -boinc:max_nstruct 20000 -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 1585198
Using database: database_f5ae1de8e1database

ERROR: PHE:N_Methylation:AcetylatedNtermConnectionProteinFull doesnt have connection at N
ERROR:: Exit from: src/core/conformation/Conformation.cc line: 1756
BOINC:: Error reading and gzipping output datafile: default.out

command: projects/boinc.bakerlab.org_rosetta/rosetta_beta_6.06_windows_x86_64.exe @hal_8a_q_hal_8aa_3jp2134_d135_0001.flags -nstruct 10000 -cpu_run_time 28800 -boinc:max_nstruct 20000 -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 2276248
Using database: database_f5ae1de8e1database

ERROR: Unable to find desired residue 'DALA' with variant 'SIDECHAIN_CONJUGATION'. Attempted to add target variant(s) to ResidueType using both ResidueType base name 'DALA' and base ResidueType. Was attempting to add new variant type 'SIDECHAIN_CONJUGATION'
ERROR:: Exit from: src/core/chemical/ResidueTypeSet.cc line: 980
BOINC:: Error reading and gzipping output datafile: default.out
21:42:44 (16008): called boinc_finish(1)

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Today still the same error.
Please, stop this batch of 6.06

i am not sure it is always wise to "stop the batch" because there is a probability that this will prevent from finding all errors, so next batch will have them again unfixed

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i crunch for Ukraine. Join our team forums about Rosetta@home

Today still the same error.
Please, stop this batch of 6.06

i am not sure it is always wise to "stop the batch" because there is a probability that this will prevent from finding all errors, so next batch will have them again unfixed

It's all the same error.
No point in doing the same thing over & over again hoping for different outcome.

Pull them all, sort out the problem.
Then try again.

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Grant
Darwin NT

i am not sure it is always wise to "stop the batch" because there is a probability that this will prevent from finding all errors, so next batch will have them again unfixed

No.
- This is NOT a beta/test project. If you need to test, re-activate Ralph@home
- After 2 days they have thousands of bugged wus, so they have not the problem to "find errors"
- All errors are ALWAYS reported by volunteers

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Today still the same error.
Please, stop this batch of 6.06

i am not sure it is always wise to "stop the batch" because there is a probability that this will prevent from finding all errors, so next batch will have them again unfixed

It's all the same error.
No point in doing the same thing over & over again hoping for different outcome.

Pull them all, sort out the problem.
Then try again.

Sorry, I'm a bit confused by this.
I reported that 1.6million tasks I spotted on the front page got pulled on Aug 16th, which is 4 days ago now.
There may have been bits & pieces of Beta 6.06 issued since but mainly resends of tasks timed out.
Only 1771 Beta 6.06 tasks are reported awaiting to come back, so I don't know why anyone's seeing anything at all.
Just the odd few Rosetta 4.20 tasks which mainly run fine, with the occasional one crashing out several hours in.

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Only 1771 Beta 6.06 tasks are reported awaiting to come back, so I don't know why anyone's seeing anything at all.

AFAIK they're not.
I was responding to a post that was made in response to a post from when there were lots of Beta Tasks (18,000) still ready to be sent, but at that time had not been sent out (18/08, later that day, those Ready to send Tasks were all removed).



Edit- of course it would be nice if they would fix Ralph, then we can get back to testing the new application there (instead of here) so that the next time they do release work here for it, it won't all die in seconds...

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Grant
Darwin NT

Only 1771 Beta 6.06 tasks are reported awaiting to come back, so I don't know why anyone's seeing anything at all.

AFAIK they're not.
I was responding to a post that was made in response to a post from when there were lots of Beta Tasks (18,000) still ready to be sent, but at that time had not been sent out (18/08, later that day, those Ready to send Tasks were all removed).

Edit- of course it would be nice if they would fix Ralph, then we can get back to testing the new application there (instead of here) so that the next time they do release work here for it, it won't all die in seconds...

I didn't know about the 18k Beta tasks. I never saw that.

But now guess what - validators are currently down... boinc-process again

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But now guess what - validators are currently down... boinc-process again

So after 3 weeks of down time, the boinc-process server is still borked...

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Grant
Darwin NT

But now guess what - validators are currently down... boinc-process again

So after 3 weeks of down time, the boinc-process server is still borked...

What else is new here? Just bounce from one problem to another.
BTW...assimilators are down as well.

So after 3 weeks of down time, the boinc-process server is still borked...

What else is new here? Just bounce from one problem to another.
BTW...assimilators are down as well.

boinc-process is the server responsible for Validation, and Assimilation.

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Grant
Darwin NT

With this batch (RosettaVS_Save_all_out_nojran), graphic doesnt' work (on my Windows pcs)

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A lot of errors:

ERROR: Error in simple_cycpep_predict app! The imported native pose has a different number of residues than the sequence provided.
ERROR:: Exit from: src/protocols/cyclic_peptide_predict/SimpleCycpepPredictApplication.cc line: 2798
BOINC:: Error reading and gzipping output datafile: default.out

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A lot of errors:

ERROR: Error in simple_cycpep_predict app! The imported native pose has a different number of residues than the sequence provided.
ERROR:: Exit from: src/protocols/cyclic_peptide_predict/SimpleCycpepPredictApplication.cc line: 2798
BOINC:: Error reading and gzipping output datafile: default.out

4 out of 36 so far from my end.

4 out of 36 so far from my end.

For me 15 out of 70.
And another error:

ERROR: Unable to find desired residue 'PRO' with variant 'N_METHYLATION'. Attempted to add target variant(s) to ResidueType using both ResidueType base name 'PRO' and base ResidueType. Was attempting to add new variant type 'N_METHYLATION'
ERROR:: Exit from: src/core/chemical/ResidueTypeSet.cc line: 980
BOINC:: Error reading and gzipping output datafile: default.out
01:43:44 (9128): called boinc_finish(1)

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I'm running Beta 6.06 and saw 8/35 or so fail with a similar error message

ERROR: Error in simple_cycpep_predict app! The imported native pose has a different number of residues than the sequence provided.
ERROR:: Exit from: src/protocols/cyclic_peptide_predict/SimpleCycpepPredictApplication.cc line: 2798
BOINC:: Error reading and gzipping output datafile: default.out

I'm not sure why these few failed while the others seemed to process fine?

This is on apple silicon as well, M1 line

Just adding another datapoint :~)

Just got 4 of these errors from Rosetta Beta v6.06 x86_64-pc-linux-gnu
This one is from WU 1418259909

<core_client_version>7.20.2</core_client_version>
<![CDATA[
<message>
process exited with code 1 (0x1, -255)</message>
<stderr_txt>
command: ../../projects/boinc.bakerlab.org_rosetta/rosetta_beta_6.06_x86_64-pc-linux-gnu @10aa_1_c_hal_10aa_ce5569_d161_0001.flags -nstruct 10000 -cpu_run_time 28800 -boinc:max_nstruct 20000 -checkpoint_interval 120 -mute all -database minirosetta_database -in::file::zip minirosetta_database.zip -boinc::watchdog -boinc::cpu_run_timeout 36000 -run::rng mt19937
Using database: database_f5ae1de8e1/database

ERROR: Error in simple_cycpep_predict app!  The imported native pose has a different number of residues than the sequence provided.
ERROR:: Exit from: src/protocols/cyclic_peptide_predict/SimpleCycpepPredictApplication.cc line: 2798
BOINC:: Error reading and gzipping output datafile: default.out
03:13:24 (16644): called boinc_finish(1)

</stderr_txt>
]]>

A lot of errors:

ERROR: Error in simple_cycpep_predict app! The imported native pose has a different number of residues than the sequence provided.
ERROR:: Exit from: src/protocols/cyclic_peptide_predict/SimpleCycpepPredictApplication.cc line: 2798
BOINC:: Error reading and gzipping output datafile: default.out

Still a lot....

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A lot of errors:

Still a lot....

Yes, it is disappointing/annoying.
Given this seems to be part of the 2.5millon batch that's just been released and given each task errors out within the first few minutes at worst, I suspect this is going to be another one of those where it's easier to let them run and error out than it is to withdraw them all and correct the coding fault that caused them.
In other words, don't worry about it.
The problem will likely have become very obvious to the researchers very early on.
It just means the 2.5m batch will only provide ~2m good results and they won't provide quite as much work for us as we'd hope.
Bygones.

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