chore: remove .gemini and clean up .gitignore

.gemini

@@ -1 +0,0 @@
-.claude

.gitignore

@@ -82,7 +82,6 @@ site/.venv/
 *.swp
 *.swo
 *~
-.DS_Store
 
 # Jupyter Book / Quarto build artifacts
 book/_build/
@@ -93,16 +92,12 @@ book/quarto/**/._*_xref.json
 book/quarto/**/*_files/
 book/quarto/**/*.backup.*
 book/quarto/*_figures.txt
-site/_build/
 docs/_build/
 
-# NBGrader - assignments are dynamically generated via 'tito nbgrader generate'
-# Only ignore student submissions and grading outputs, not source/release (for now)
+# NBGrader - only ignore generated outputs, not source/release
 assignments/autograded/
 assignments/feedback/
 assignments/submitted/
-# Note: assignments/source/ and assignments/release/ are kept in git for now
-# but should be regenerated with 'tito nbgrader generate' when modules change
 
 # Logs
 *.log
@@ -130,6 +125,7 @@ book/tools/scripts/testing/logs/
 # OS
 .DS_Store
 Thumbs.db
+.envrc
 
 # Temporary files
 *.tmp
@@ -139,12 +135,14 @@ Thumbs.db
 *.bak
 *.backup
 
-# AI assistant configs (symlinks to external AIConfigs repo, not tracked)
+# Misc. configurations
 .claude
 .claude/
 .cursor
 .cursor/
 .cursor~HEAD
+.gemini
+.gemini/
 .ai/
 
 # MLSysBook extension working directories (worktrees, reports, logs)
@@ -169,36 +167,11 @@ milestones/datasets/
 !datasets/README.md
 !datasets/DATASET_ANALYSIS.md
 
-# Temporary AI-generated reports (not permanent project docs)
-MODULE_REVIEW_REPORT_*.md
-MODULE_STATUS_SUMMARY.md
-**/*_SUMMARY.md
-**/*_REPORT*.md
-**/*_ANALYSIS.md
-**/*_VERIFICATION.md
-**/*_CHECKLIST.md
-**/*_FIXES*.md
-**/*_CHANGES*.md
-**/*_COMPLETE.md
-**/*_RECOMMENDATIONS.md
-**/*_BEFORE_AFTER.md
-**/*_OUTPUTS.md
-**/*_UPDATE.md
-**/*_STATUS.md
-**/*_MAP.md
-**/*_GUIDE.md
-**/*_FINDINGS.md
-**/*_PLAN.md
-**/*_COMPARISON.md
-**/*_REVIEW*.md
-**/*_MATRIX.md
-**/*_INVENTORY.md
-**/*_ASSESSMENT.md
+# Temporary generated files
+progress.json
 **/VERIFY_*.py
 **/NEW_CITATIONS.bib
 **/proposed_figures.tex
-progress.json
-modules/HASATTR_*.md
 
 # Generated notebooks (built from src/*.py source files)
 # The modules/ directory contains generated notebooks for learners
@@ -212,23 +185,18 @@ docs/chapters/modules/*
 
 # Site build artifacts
 site/_build/
-.envrc
 
 # Generated tinytorch package (auto-generated from src/ via nbdev_export)
 # Single source of truth: src/*/*.py files
-# Note: This pattern is for inside tinytorch/, not at repo root
 tinytorch/tinytorch/*
 !tinytorch/tinytorch/README.md
 
 # Generated benchmark outputs
 .tito/benchmarks/
 
+# Misc. generated files
 /.luarc.json
-
 book/quarto/index.idx
-
 book/quarto/index.ilg
-
 book/quarto/index.ind
-
 CLAUDE.md