RosettaCommons / RosettaCommons/rosetta
Crash while using phenix.rosetta_refine
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- Dominant language
- C++
- Stars
- 470
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- Merged PRs (30d)
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Description
Dear Rosetta developers,
I have successfully compiled the phenix-rosetta interface (see also my PR) and now I have tried to use the phenix.rosetta_refine. Unfortunately, I run into the following error:
"""
ERROR in job 1
ERROR: Rosetta exited with status 139
stderr output:
AN INTERNAL ERROR HAS OCCURED. PLEASE SEE THE CONTENTS OF ROSETTA_CRASH.log FOR DETAILS.
Segmentation fault (core dumped)
"""
Please find the corresponding ROSETTA_CRASH.log attached.
System: Ubuntu 22.04.5 LTS
ROSETTA: rosetta.source.release-371
PHENIX: version 1.21.2-5419
Regards,
Renato
Contributor guide
First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
Start by reading the attached ROSETTA_CRASH.log and tracing the phenix.rosetta_refine integration entry point. Reproduce the segmentation fault with Rosetta source release 371, PHENIX 1.21.2-5419, and Ubuntu 22.04.5 LTS; done means identifying the failing path and confirming the crash no longer occurs.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- cpp
- Domain
- bioinformatics
- Issue type
- Bug
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100