Fix 33 Dependabot security alerts + add least-privilege CI permissions#247
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…ix per-shard coverage gate Bumps aiohttp, cryptography, urllib3, lxml, soupsieve, transformers, idna, requests, pygments, pytest, and pyasn1 to their patched versions, closing 33 open Dependabot alerts. Upgrade was scoped to only the flagged packages (not a full `uv lock --upgrade`) since a blanket upgrade also pulled in typer 0.27, which vendors its own click fork and breaks test_run_provider_command_error. Adds a top-level `permissions: contents: read` block to ci.yml, closing 3 code-scanning alerts for workflows with no explicit GITHUB_TOKEN permissions. Adds `--cov-fail-under=0` to each matrix shard's pytest invocation in ci.yml. Every "test" job was failing in CI because pytest-cov applies pyproject.toml's global `fail_under = 60` to each shard's own partial coverage (~12% each), even though the combined total only clears 60% after report-coverage merges all shards. The final report-coverage job already enforces `--fail-under=60` on the merged total, so the per-shard threshold was redundant and wrong. Co-Authored-By: Claude Sonnet 5 <noreply@anthropic.com> Signed-off-by: chris hay <chris.hay@uk.ibm.com>
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Summary
uv.lock, closing all 33 open Dependabot alerts.uv lock --upgrade-package ...) rather than a fulluv lock --upgrade, since a blanket upgrade also pulls in typer 0.27 (vendors its own click fork) which breakstest_run_provider_command_error. Kept the diff minimal and green.permissions: contents: readblock to.github/workflows/ci.yml, closing 3 code-scanning alerts for jobs with no explicitGITHUB_TOKENpermissions.Also dismissed 7 code-scanning alerts as false positives (with rationale on each): 2
clear-text-logging-sensitive-dataalerts that only interpolate booleans/floats (never a real secret), and 5incomplete-url-substring-sanitizationalerts flagging test list-membership assertions rather than the realurlparse-based domain check.Note: PRs #239 (cryptography) and #236 (pyasn1) are superseded by this change; left untouched per repo owner's request.
Test plan
uv sync --all-extras --devuv run pytest -q— 4440 passed, 12 skippedCo-Authored-By: Claude Sonnet 5 noreply@anthropic.com