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fix(mermaid): replace \n with <br/> in all node labels

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Mermaid renders literal \n as text on GitHub — line breaks inside
node labels require <br/> syntax. Fixed 12 occurrences across 4 files:

- SKILL.md: three-phase workflow (Phase 1/2/3 nodes)
- issue-00000001: three-phase workflow nodes
- pr-00000001: skill name node
- example-research-report.md: Stage 1-5 nodes in experimental workflow
This commit is contained in:
Clayton Young
2026-02-19 18:35:25 -05:00
parent ea5a287cf9
commit 54a592d7f1
4 changed files with 12 additions and 12 deletions
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6
docs/project/issues/issue-00000001-markdown-mermaid-skill.md
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@@ -63,9 +63,9 @@ flowchart LR
accTitle: Documentation Production Workflow accTitle: Documentation Production Workflow
accDescr: Mermaid in markdown is the required source phase. Python and AI-generated images are optional downstream phases for polished output only. accDescr: Mermaid in markdown is the required source phase. Python and AI-generated images are optional downstream phases for polished output only.
source["📄 Phase 1 — Mermaid in Markdown\n(ALWAYS — source of truth)"] source["📄 Phase 1 — Mermaid in Markdown<br/>(ALWAYS — source of truth)"]
python["🐍 Phase 2 — Python Generated\n(optional — when charts needed)"] python["🐍 Phase 2 — Python Generated<br/>(optional — when charts needed)"]
ai["🎨 Phase 3 — AI Generated\n(optional — polished visuals)"] ai["🎨 Phase 3 — AI Generated<br/>(optional — polished visuals)"]
final["📊 Final Output"] final["📊 Final Output"]
source --> python source --> python

2
docs/project/pr/pr-00000001-markdown-mermaid-skill.md
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@@ -84,7 +84,7 @@ flowchart TD
accTitle: New Skill Position in Ecosystem accTitle: New Skill Position in Ecosystem
accDescr: Shows markdown-mermaid-writing as the foundation layer that other skills build upon for documentation output accDescr: Shows markdown-mermaid-writing as the foundation layer that other skills build upon for documentation output
new["📄 markdown-mermaid-writing\n(this PR — new skill)"] new["📄 markdown-mermaid-writing<br/>(this PR — new skill)"]
writing["✍️ scientific-writing"] writing["✍️ scientific-writing"]
lit["📚 literature-review"] lit["📚 literature-review"]
schematics["🎨 scientific-schematics"] schematics["🎨 scientific-schematics"]

6
scientific-skills/markdown-mermaid-writing/SKILL.md
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@@ -80,9 +80,9 @@ flowchart LR
accTitle: Three-Phase Documentation Workflow accTitle: Three-Phase Documentation Workflow
accDescr: Phase 1 Mermaid in markdown is always required and is the source of truth. Phases 2 and 3 are optional downstream conversions for polished output. accDescr: Phase 1 Mermaid in markdown is always required and is the source of truth. Phases 2 and 3 are optional downstream conversions for polished output.
p1["📄 Phase 1\nMermaid in Markdown\n(ALWAYS — source of truth)"] p1["📄 Phase 1<br/>Mermaid in Markdown<br/>(ALWAYS — source of truth)"]
p2["🐍 Phase 2\nPython Generated\n(optional — data charts)"] p2["🐍 Phase 2<br/>Python Generated<br/>(optional — data charts)"]
p3["🎨 Phase 3\nAI Generated Visuals\n(optional — polish)"] p3["🎨 Phase 3<br/>AI Generated Visuals<br/>(optional — polish)"]
out["📊 Final Deliverable"] out["📊 Final Deliverable"]
p1 --> out p1 --> out

10
scientific-skills/markdown-mermaid-writing/assets/examples/example-research-report.md
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@@ -25,11 +25,11 @@ flowchart TD
accTitle: CRISPR Editing Experimental Workflow accTitle: CRISPR Editing Experimental Workflow
accDescr: Five-stage experimental pipeline from gRNA design through data analysis, with quality checkpoints between each stage. accDescr: Five-stage experimental pipeline from gRNA design through data analysis, with quality checkpoints between each stage.
design["🧬 Stage 1\ngRNA Design\n(CRISPRscan + Cas-OFFinder)"] design["🧬 Stage 1<br/>gRNA Design<br/>(CRISPRscan + Cas-OFFinder)"]
synth["⚙️ Stage 2\nOligo Synthesis\n& Annealing"] synth["⚙️ Stage 2<br/>Oligo Synthesis<br/>& Annealing"]
transfect["🔬 Stage 3\nCell Transfection\n(Lipofectamine 3000)"] transfect["🔬 Stage 3<br/>Cell Transfection<br/>(Lipofectamine 3000)"]
screen["🧪 Stage 4\nPrimary Screen\n(T7E1 assay)"] screen["🧪 Stage 4<br/>Primary Screen<br/>(T7E1 assay)"]
ngs["📊 Stage 5\nNGS Validation\n(150 bp PE reads)"] ngs["📊 Stage 5<br/>NGS Validation<br/>(150 bp PE reads)"]
qc1{GC 40-65%?} qc1{GC 40-65%?}
qc2{Yield ≥ 2 µg?} qc2{Yield ≥ 2 µg?}