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EBIvariation / vcf-validator

Validation suite for Variant Call Format (VCF) files, implemented using C++11
Apache License 2.0
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Error with loadlocale: _nl_intern_locale_data #184

Closed dariober closed 4 years ago

dariober commented 5 years ago

Hi- with vcf_validator v0.9.1 on Ubuntu 18.04 I get the error:

./vcf_validator -i data/common.sample.vcf.gz
[info] Reading from input file...
vcf_validator: loadlocale.c:129: _nl_intern_locale_data: Assertion `cnt < (sizeof (_nl_value_type_LC_TIME) / sizeof (_nl_value_type_LC_TIME[0]))' failed.
Aborted (core dumped)

After some googling I found I can work around it by first executing export LC_ALL=C but it would be nice to have a more permanent solution...

jmmut commented 5 years ago

Hi, yes, you are right, we noticed this some days ago and reached to the same conclusion. However, we didn't have time to fix this yet. I can put a short notice in the readme for now. We will update and close this issue when it's fixed. Thanks.

thedam commented 4 years ago

we're still waiting :)

jmmut commented 4 years ago

This is from april... 6 months already... Be sure I haven't forgotten about this. I'll try a bit harder to convince my bosses to let me (or someone else) spend some time on this. If there's a PR from anyone I'll probably take a look in my personal spare time.

The thing is, it's not really broken. It works with the annoying workaround. It's hard to prioritize this when there are other urgent and broken projects.

jmmut commented 4 years ago

fixed in the latest release: v0.9.3: https://github.com/EBIvariation/vcf-validator/releases/tag/v0.9.3