New release 2.0.0 including dda workflow for quantmsdiann#36

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Commits on Apr 3, 2026

docs: add v1.0.0 release implementation plan

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fix: add pipefail to all modules with tee pipes

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fix: add error_retry label to all DIA-NN analysis modules

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fix: add empty input guards to prevent silent pipeline hangs

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feat: add DIA-NN 2.3.2 version config and profile

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feat: add DDA support via --diann_dda flag (#5)

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test: add DDA and skip_preanalysis test configs

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feat: add --light-models, --export-quant, --site-ms1-quant params (#7)

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feat: add InfinDIA groundwork — enable_infin_dia param (#10)

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docs: add comprehensive parameter reference (#1)

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docs: complete usage.md, output.md, citations, README (#1, #3, #9, #15)

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style: apply prettier formatting to parameters.md

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chore: remove internal planning doc to resolve merge conflict

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fix: address PR #32 review comments

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fix: critical DDA bugs — missing version param and channel routing

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Commits on Apr 4, 2026

fix: make --no-ifs-removal and --no-main-report version-conditional

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Commits on Apr 14, 2026

Merge pull request #53 from bigbio/feat/diann-2.5.0
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