Speed up GlyCAM IUPAC parsing

[fubin1999]

Summary

Speed up parse_glycam_iupac() by reusing its monosaccharide mapping across all residues in an input vector. This brings GlyCAM throughput into the same range as the other IUPAC parsers without changing parsing behavior or public APIs.

Rational

Profiling showed that rebuilding glycam_iupac_mono_map() for every residue accounted for approximately 96% of GlyCAM normalization time.

Details

• Build the GlyCAM monosaccharide map once per input vector.
• Pass the shared map through the internal token and monosaccharide converters.
• Document the performance improvement in NEWS.md.

Verification

• 300 distinct corpus structures: 24.4 to 132.9 structures/second.
• Median runtime: 12.319s to 2.258s, a 5.46x speedup.
• Canonical values and semantic graphs matched for all 300 structures.
• All 6,816 matched corpus records normalized successfully.
• Full test suite: 1,658 passed.
• R CMD check: 0 errors, 0 warnings; one environment-only system-clock NOTE.

[codacy-production]

Up to standards ✅

🟢 Issues 0 issues

Results:
0 new issues

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[fubin1999]

@codex review

[chatgpt-codex-connector]

Codex Review: Didn't find any major issues. Nice work!

Reviewed commit: e5be9a3ec7

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