fix: properly quote base and pm_agent in write_index calls

When base or pm_agent are not null, they need to be quoted with escaped quotes ("") in write_index calls.
This fixes 'write_index would create malformed JSON' error during init.

skills/kugetsu/scripts/kugetsu

@@ -475,104 +475,6 @@ read_index() {
     fi
 }
 
-write_index() {
-    local base="$1"
-    local pm_agent="$2"
-    local issues_json="$3"
-    local temp_file="$INDEX_FILE.tmp.$$"
-    printf '{"base": %s, "pm_agent": %s, "issues": %s}\n' "$base" "$pm_agent" "$issues_json" > "$temp_file"
-    
-    if ! python3 -c "import json; json.load(open('$temp_file'))" 2>/dev/null; then
-        echo "Error: write_index would create malformed JSON, aborting. base=$base, pm_agent=$pm_agent, issues_json=$issues_json" >&2
-        rm -f "$temp_file"
-        return 1
-    fi
-    
-    mv "$temp_file" "$INDEX_FILE"
-}
-
-get_base_session_id() {
-    local index=$(read_index)
-    echo "$index" | python3 -c "import sys, json; d=json.load(sys.stdin); print(d.get('base') or '')"
-}
-
-get_pm_agent_session_id() {
-    local index=$(read_index)
-    echo "$index" | python3 -c "import sys, json; d=json.load(sys.stdin); print(d.get('pm_agent') or '')"
-}
-
-get_session_for_issue() {
-    local issue_ref="$1"
-    local index=$(read_index)
-    echo "$index" | python3 -c "import sys, json; d=json.load(sys.stdin); print(d['issues'].get('$issue_ref') or '')"
-}
-
-set_base_in_index() {
-    local base_session_id="$1"
-    local pm_agent=$(get_pm_agent_session_id)
-    local issues_json=$(read_index | python3 -c "import sys, json; d=json.load(sys.stdin); print(json.dumps(d['issues']))")
-    if [ -z "$pm_agent" ] || [ "$pm_agent" = "null" ]; then
-        write_index "\"$base_session_id\"" "null" "$issues_json"
-    else
-        write_index "\"$base_session_id\"" "\"$pm_agent\"" "$issues_json"
-    fi
-}
-
-set_pm_agent_in_index() {
-    local pm_agent_session_id="$1"
-    local base=$(get_base_session_id)
-    local issues_json=$(read_index | python3 -c "import sys, json; d=json.load(sys.stdin); print(json.dumps(d['issues']))")
-    if [ -z "$base" ] || [ "$base" = "null" ]; then
-        write_index "null" "\"$pm_agent_session_id\"" "$issues_json"
-    else
-        write_index "\"$base\"" "\"$pm_agent_session_id\"" "$issues_json"
-    fi
-}
-
-add_issue_to_index() {
-    local issue_ref="$1"
-    local session_file="$2"
-    local index=$(read_index)
-    local base=$(get_base_session_id)
-    local pm_agent=$(get_pm_agent_session_id)
-    local issues=$(echo "$index" | python3 -c "import sys, json; d=json.load(sys.stdin); print(json.dumps(d['issues']))")
-    local new_issues=$(echo "$issues" | python3 -c "import sys, json; d=json.load(sys.stdin); d['$issue_ref']='$session_file'; print(json.dumps(d))")
-    if [ -z "$base" ] || [ "$base" = "null" ]; then
-        if [ -z "$pm_agent" ] || [ "$pm_agent" = "null" ]; then
-            write_index "null" "null" "$new_issues"
-        else
-            write_index "null" "\"$pm_agent\"" "$new_issues"
-        fi
-    else
-        if [ -z "$pm_agent" ] || [ "$pm_agent" = "null" ]; then
-            write_index "\"$base\"" "null" "$new_issues"
-        else
-            write_index "\"$base\"" "\"$pm_agent\"" "$new_issues"
-        fi
-    fi
-}
-
-remove_issue_from_index() {
-    local issue_ref="$1"
-    local index=$(read_index)
-    local base=$(get_base_session_id)
-    local pm_agent=$(get_pm_agent_session_id)
-    local new_issues=$(echo "$index" | python3 -c "import sys, json; d=json.load(sys.stdin); d['issues'].pop('$issue_ref', None); print(json.dumps(d['issues']))")
-    if [ -z "$base" ] || [ "$base" = "null" ]; then
-        if [ -z "$pm_agent" ] || [ "$pm_agent" = "null" ]; then
-            write_index "null" "null" "$new_issues"
-        else
-            write_index "null" "\"$pm_agent\"" "$new_issues"
-        fi
-    else
-        if [ -z "$pm_agent" ] || [ "$pm_agent" = "null" ]; then
-            write_index "\"$base\"" "null" "$new_issues"
-        else
-            write_index "\"$base\"" "\"$pm_agent\"" "$new_issues"
-        fi
-    fi
-}
-
 validate_issue_ref() {
     local issue_ref="$1"
     if [[ ! "$issue_ref" =~ ^[^/]+/[^/]+/[^#]+#[0-9]+$ ]]; then

skills/kugetsu/scripts/kugetsu-index.sh

@@ -50,7 +50,11 @@ set_base_in_index() {
     if [ "$session_id" = "null" ]; then
         write_index "null" "$pm_agent" "$issues"
     else
-        write_index "\"$session_id\"" "$pm_agent" "$issues"
+        if [ "$pm_agent" = "null" ]; then
+            write_index "\"$session_id\"" "null" "$issues"
+        else
+            write_index "\"$session_id\"" "\"$pm_agent\"" "$issues"
+        fi
     fi
 }
 
@@ -63,7 +67,11 @@ set_pm_agent_in_index() {
     if [ "$session_id" = "null" ]; then
         write_index "$base" "null" "$issues"
     else
-        write_index "$base" "\"$session_id\"" "$issues"
+        if [ "$base" = "null" ]; then
+            write_index "null" "\"$session_id\"" "$issues"
+        else
+            write_index "\"$base\"" "\"$session_id\"" "$issues"
+        fi
     fi
 }
 
@@ -79,7 +87,19 @@ add_issue_to_index() {
     
     issues=$(python3 -c "import sys, json; d=json.load(sys.stdin); d['$issue_ref']='$session_file'; print(json.dumps(d))" <<< "$issues")
     
-    write_index "$base" "$pm_agent" "$issues"
+    if [ "$base" = "null" ]; then
+        if [ "$pm_agent" = "null" ]; then
+            write_index "null" "null" "$issues"
+        else
+            write_index "null" "\"$pm_agent\"" "$issues"
+        fi
+    else
+        if [ "$pm_agent" = "null" ]; then
+            write_index "\"$base\"" "null" "$issues"
+        else
+            write_index "\"$base\"" "\"$pm_agent\"" "$issues"
+        fi
+    fi
 }
 
 remove_issue_from_index() {
@@ -93,7 +113,19 @@ remove_issue_from_index() {
     
     issues=$(python3 -c "import sys, json; d=json.load(sys.stdin); d.pop('$issue_ref', None); print(json.dumps(d))" <<< "$issues")
     
-    write_index "$base" "$pm_agent" "$issues"
+    if [ "$base" = "null" ]; then
+        if [ "$pm_agent" = "null" ]; then
+            write_index "null" "null" "$issues"
+        else
+            write_index "null" "\"$pm_agent\"" "$issues"
+        fi
+    else
+        if [ "$pm_agent" = "null" ]; then
+            write_index "\"$base\"" "null" "$issues"
+        else
+            write_index "\"$base\"" "\"$pm_agent\"" "$issues"
+        fi
+    fi
 }
 
 validate_issue_ref() {