Getting fault in smartpca
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- Dominant language
- C
- Stars
- 207
- Forks
- 61
- PR merge metrics
- No merged PRs in 30d
Description
I am running smartPCA with fastmode: YES on a dataset of 188380 SNPs and 50k individuals.
After running like for 200 mins it gives the following error.
Illegal instruction (core dumped) smartpca -p par.data > data.log
Contributor guide
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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 with the reported smartpca command, par.data parameters, and data.log output, focusing on the fastmode: YES setting and the Illegal instruction message. Reproduce with the stated dataset scale if available and determine whether the failure is tied to the input, runtime environment, or processor. Done would be a documented cause with a verified resolution or reproducible diagnostic.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- c
- Domain
- bioinformatics
- Issue type
- Bug
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100