Perform code optimization and document cleanup (#1)

## Summary
- add repository-wide quality tooling and verification scaffolding, including CI workflows, pnpm workspace setup, ESLint/Prettier/markdown checks, and generated-output verification helpers
- reorganize skill sources and generation flow by introducing canonical `_source` variants, generator/manifests, reusable helper abstractions, and shared web-automation/browser utilities
- clean up and expand documentation so the root README flows into docs and skill docs, with clearer development, reviewer, installer, and workflow guidance

## Notable changes
- docs flow and consistency cleanup across `README.md`, `docs/README.md`, and related docs
- new scripts for `check`, docs verification, generated-file verification, shell portability, and safe directory replacement
- refactors in Atlassian and web-automation skill runtimes to reduce duplication and centralize reusable code
- changelog, development documentation, and CI surface updates

## Test Plan
- [ ] `pnpm run check`
- [ ] review generated/manifests and skill sync outputs
- [ ] smoke-check docs flow from `README.md` to `docs/README.md` to skill docs

## Notes
- this branch currently includes tracked `skills/web-automation/shared/node_modules` content that should be reviewed carefully as potentially noisy/accidental committed artifacts

Co-authored-by: Stefano Fiorini <stefano.fiorini@firsthorizon.com>
Reviewed-on: #1

skills/reviewer-runtime/run-review.sh

@@ -144,6 +144,7 @@ kill_child_process_group() {
   fi
 }
 
+# shellcheck disable=SC2317,SC2329
 handle_signal() {
   local signal_name=$1
   INTERRUPTED=1
@@ -263,7 +264,6 @@ main() {
   local last_output_change_time=$START_TIME
   local last_heartbeat_time=$START_TIME
   local soft_timeout_logged=0
-  local stall_warning_logged=0
   local heartbeat_count=0
 
   while kill -0 "$CHILD_PID" 2>/dev/null; do
@@ -283,7 +283,6 @@ main() {
 
     if [[ "$stdout_bytes" -ne "$last_stdout_bytes" || "$stderr_bytes" -ne "$last_stderr_bytes" ]]; then
       last_output_change_time=$now
-      stall_warning_logged=0
       state=running-active
       level=info
       note="reviewer output changed"
@@ -294,7 +293,6 @@ main() {
         state=stall-warning
         level=warn
         note="no output growth for ${silent_for}s; process still alive"
-        stall_warning_logged=1
       else
         state=running-silent
         level=info
@@ -326,10 +324,9 @@ main() {
   set -e
   trap - EXIT
 
-  local final_stdout_bytes final_stderr_bytes
+  local final_stdout_bytes
   local success_file success_bytes
   final_stdout_bytes=$(file_bytes "$STDOUT_FILE")
-  final_stderr_bytes=$(file_bytes "$STDERR_FILE")
 
   if [[ "$child_exit_code" -eq 0 ]]; then
     if [[ "$final_stdout_bytes" -gt 0 ]]; then