Comments (3)
brentp
commented on June 3, 2024
Hi, it's very hard to debug this as you're using pypy and apparently some other layers of indirection.
Could you point to the repo or code that shows this issue? I don't know much about cpython extensions and pypy, but that would be a start.
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adrienlemeur
commented on June 3, 2024
Hmm, I thought pypy was used at some point by cyvcf2 because I don't really now what it is. I just use very standard libraries (argparse, re, sys) in addition to cyvcf2.
It appears the problem solved itself by deactivating mamba... ? I really do not understand what is going on here tbh
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adrienlemeur
commented on June 3, 2024
Either way, it solved itself and I don't think it came from cyvcf2, thank you anyway !
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Related Issues (20)
- cyvcf2 wheel build fail on 0.30.19~0.30.22 (python3.11 + arm64 + debain bookworm) HOT 7
- variant.format('GT') yields unexpected string format HOT 3
- Bug: Set_samples function somehow removed all FORMAT fields HOT 2
- Floating point imprecision HOT 8
- Dealing with missing values in INFO column HOT 2
- Processing BED? HOT 2
- Any method available to split vcf files into individual sample vcf files
- Importing 64bit integers in FORMAT? HOT 4
- Add setter for POS HOT 1
- Crash with single GT allele value - UnicodeDecodeError: 'ascii' codec can't decode byte 0x81 in position 1: ordinal not in range(128) HOT 2
- Could you bump a new version to the pip HOT 1
- Provide access to index stats HOT 6
- Suggest not to remove htslib/config.status at setup.py
- No macOS arm64 wheels available for 0.30.26 and 0.30.27 HOT 1
- Adding new variant record
- Multiallelic VCF with annotation in INFO field doesn't query all available infromation HOT 3
- ##INFO fields being dropped HOT 6
- Skip the warnings? HOT 2
- Missing values for multi-allelic variants result in large negative numbers in `.format("AD")`, not all the same HOT 1
- MacOS ARM wheels broken? HOT 12
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