Add remote server support to research template

- Add server and remoteDir fields to research projects configuration
- Update project launcher to handle remote server parameters
- Enhance research template with remote server window (window 7)
- Add dual-pane remote SSH connections with auto-reconnect aliases
- Document remote server features in README with configuration examples

Features:
- Type 'r' in any remote pane to reconnect after network drops
- Automatic SSH connection and directory navigation
- Parallel remote work with dual panes
- Backwards compatible - optional server configuration

🤖 Generated with [Claude Code](https://claude.ai/code)

Co-Authored-By: Claude <noreply@anthropic.com>

README.md

@@ -181,7 +181,24 @@ nix-config        # Launch nix-config project tmux session
 #### Template Types:
 - **Basic**: Single directory (nvim + ai + git + shell)
 - **Content**: Code directory + separate content directory
-- **Research**: Code directory + separate paper directory
+- **Research**: Code directory + separate paper directory + optional remote server
+
+#### Research Template Remote Server Support:
+The research template supports optional remote server connections with these features:
+- **Remote Server Window**: Window 7 with dual horizontal panes for parallel remote work
+- **Automatic Connection**: SSH to configured server with automatic directory navigation
+- **Reconnect Alias**: Type `r` in any remote pane to easily reconnect after network drops
+- **Configuration**: Add `server` and `remoteDir` fields to research projects
+
+**Example Configuration:**
+```nix
+mdshortcut = {
+  template = "research";
+  # ... other fields ...
+  server = "aicloud";      # SSH host from ~/.ssh/config
+  remoteDir = "~/MDS";     # Remote directory path
+};
+```
 
 #### Adding New Projects:
 Edit `config/projects.nix` and run `hms` to rebuild configuration.

config/projects.json

@@ -1 +1 @@
-/nix/store/xqkhnpdqqiczakpc94wg27fw3qgqjk85-home-manager-files/.config/nix/config/projects.json
+/nix/store/wra0kir8w2f9g6q6qmy8jwk585vbgavr-home-manager-files/.config/nix/config/projects.json

config/projects.nix

@@ -35,6 +35,8 @@
       codePath = "/Users/yanlin/Documents/Projects/Material Design Shortcut/MDShortcut-dev";
       paperPath = "/Users/yanlin/Documents/Projects/Material Design Shortcut/MDShortcut-paper";
       description = "Material Design Shortcut research project";
+      server = "aicloud";
+      remoteDir = "~/MDS";
     };
 
     daki3 = {
@@ -43,5 +45,15 @@
       codePath = "/Users/yanlin/Documents/Projects/AI systems & infrastructure/Codes";
       description = "DAKI3 course Demo code";
     };
+
+    diffdismatter = {
+      template = "research";
+      name = "DiffDisMatter";
+      codePath = "/Users/yanlin/Documents/Projects/Inverse Design of Disordered Materials/DiffDisMatter-dev";
+      paperPath = "/Users/yanlin/Documents/Projects/Inverse Design of Disordered Materials/mc-denoising-paper";
+      description = "Inverse material design";
+      server = "aicloud";
+      remoteDir = "~/DiffDisMatter";
+    };
   };
 }

scripts/project-launcher.sh

@@ -64,6 +64,8 @@ SESSION_NAME=$(echo "$PROJECT_CONFIG" | jq -r '.name')
 CODE_PATH=$(echo "$PROJECT_CONFIG" | jq -r '.codePath')
 CONTENT_PATH=$(echo "$PROJECT_CONFIG" | jq -r '.contentPath // empty')
 PAPER_PATH=$(echo "$PROJECT_CONFIG" | jq -r '.paperPath // empty')
+SERVER=$(echo "$PROJECT_CONFIG" | jq -r '.server // empty')
+REMOTE_DIR=$(echo "$PROJECT_CONFIG" | jq -r '.remoteDir // empty')
 
 # Launch appropriate template
 case "$TEMPLATE" in
@@ -82,7 +84,11 @@ case "$TEMPLATE" in
             echo "Error: Research template requires paperPath"
             exit 1
         fi
-        exec "$TEMPLATES_DIR/research.sh" "$SESSION_NAME" "$CODE_PATH" "$PAPER_PATH"
+        if [ -n "$SERVER" ] && [ -n "$REMOTE_DIR" ]; then
+            exec "$TEMPLATES_DIR/research.sh" "$SESSION_NAME" "$CODE_PATH" "$PAPER_PATH" "$SERVER" "$REMOTE_DIR"
+        else
+            exec "$TEMPLATES_DIR/research.sh" "$SESSION_NAME" "$CODE_PATH" "$PAPER_PATH"
+        fi
         ;;
     *)
         echo "Error: Unknown template '$TEMPLATE'"

scripts/templates/research.sh

@@ -1,14 +1,16 @@
 #!/bin/bash
 
-# Research workflow template - code + separate paper directory
+# Research workflow template - code + separate paper directory + optional remote server
-# Usage: research.sh SESSION_NAME CODE_PATH PAPER_PATH
+# Usage: research.sh SESSION_NAME CODE_PATH PAPER_PATH [SERVER] [REMOTE_DIR]
 
 SESSION_NAME="$1"
 CODE_PATH="$2"
 PAPER_PATH="$3"
+SERVER="$4"
+REMOTE_DIR="$5"
 
 if [ -z "$SESSION_NAME" ] || [ -z "$CODE_PATH" ] || [ -z "$PAPER_PATH" ]; then
-    echo "Usage: $0 SESSION_NAME CODE_PATH PAPER_PATH"
+    echo "Usage: $0 SESSION_NAME CODE_PATH PAPER_PATH [SERVER] [REMOTE_DIR]"
     exit 1
 fi
 
@@ -41,6 +43,17 @@ tmux select-pane -t $SESSION_NAME:5.1
 tmux new-window -t $SESSION_NAME:6 -n "paper-git" -c "$PAPER_PATH"
 tmux send-keys -t $SESSION_NAME:6 "gitui" C-m
 
+# Create remote server window if server details are provided
+if [ -n "$SERVER" ] && [ -n "$REMOTE_DIR" ]; then
+    tmux new-window -t $SESSION_NAME:7 -n "remote" -c "$CODE_PATH"
+    tmux send-keys -t $SESSION_NAME:7 "alias r='ssh $SERVER -t \"cd $REMOTE_DIR && exec \\\$SHELL\"'" C-m
+    tmux send-keys -t $SESSION_NAME:7 "ssh $SERVER -t 'cd $REMOTE_DIR && exec \$SHELL'" C-m
+    tmux split-window -t $SESSION_NAME:7 -v -c "$CODE_PATH"
+    tmux send-keys -t $SESSION_NAME:7.2 "alias r='ssh $SERVER -t \"cd $REMOTE_DIR && exec \\\$SHELL\"'" C-m
+    tmux send-keys -t $SESSION_NAME:7.2 "ssh $SERVER -t 'cd $REMOTE_DIR && exec \$SHELL'" C-m
+    tmux select-pane -t $SESSION_NAME:7.1
+fi
+
 tmux select-window -t $SESSION_NAME:1
 
 tmux attach-session -t $SESSION_NAME