nf-core / nf-core/proteogenomicsdb
error on ensembl_fasta_download
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Description
Error executing process > 'ensembl_fasta_download'
Caused by:
Process ensembl_fasta_download terminated with an error exit status (137)
Tried with higher RAM -128 GB
Command executed:
pypgatk_cli.py ensembl-downloader
--config_file ensembl_downloader_config.yaml
--ensembl_name homo_sapiens
-sv -sc
Command exit status:
137
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Research direction
Start with the ensembl_fasta_download process and reproduce the pypgatk_cli.py ensembl-downloader command using ensembl_downloader_config.yaml. Investigate what causes exit status 137 despite the reported 128 GB allocation; done means the failure is resolved or the required resource/configuration limitation is clearly identified.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- bioinformatics
- Issue type
- Bug
- Difficulty
- 4/5
- Estimated time
- 3-5 days
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 25/100