Fix reading UTF-8 encoded sample names when char is signed#1237
Merged
valeriuo merged 1 commit intosamtools:developfrom Feb 17, 2021
Merged
Fix reading UTF-8 encoded sample names when char is signed#1237valeriuo merged 1 commit intosamtools:developfrom
valeriuo merged 1 commit intosamtools:developfrom
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The trick used in bcf_hdr_parse_sample_line() to rapidly find tabs and newlines could be defeated by UTF-8 characters outside the Basic Latin range on platforms where "char" is signed (like x86). It's currently not clear if VCF intends to allow these, but the 4.3 specification does allow UTF-8 and it's easy enough to support. Fix by casting to unsigned when making the comparison. Modifies formatcols.vcf to include a UTF-8 character for a round-trip test. Fixes samtools/bcftools#1408
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The trick used in bcf_hdr_parse_sample_line() to rapidly find tabs and newlines could be defeated by UTF-8 characters outside the Basic Latin range on platforms where "char" is signed (like x86). It's currently not clear if VCF intends to allow these, but the 4.3 specification does allow UTF-8 and it's easy enough to support. Fix by casting to unsigned when making the comparison.
Modifies formatcols.vcf to include a UTF-8 character for a round-trip test.
Fixes samtools/bcftools#1408