script recognize submodules

UpdateSequences.bat

@@ -55,9 +55,16 @@ if not defined ps1 (
     exit /b 1
 )
 
-echo   Running PowerShell update script...
+REM Run from batch directory (sequences next to batch, or submodule root)
+set "WORK_DIR=%script_dir%"
+if "%WORK_DIR:~-1%"=="\" set "WORK_DIR=%WORK_DIR:~0,-1%"
+pushd "%WORK_DIR%" >nul 2>&1
+
+echo   Running PowerShell update script in %WORK_DIR%...
 powershell -NoProfile -ExecutionPolicy Bypass -File "%ps1%"
 set "rc=%errorlevel%"
+
+popd >nul 2>&1
 echo PowerShell exited with RC=%rc%
 echo Done.
 pause >nul

UpdateSequences.ps1

@@ -253,7 +253,14 @@ try {
             $_.Name -notmatch '^\d{4}-\d{2}-\d{2}$'
         }
     foreach ($seq in $directSeqs) {
-        Add-SequenceFolder -Directory $seq -Map $sequenceMap
+        $seqDirs = @(Get-ChildItem -LiteralPath $seq.FullName -Directory -ErrorAction SilentlyContinue | Where-Object { $_.Name -notlike '_*' })
+        if ($seqDirs.Count -eq 0) {
+            Add-SequenceFolder -Directory $seq -Map $sequenceMap
+        } else {
+            foreach ($s in $seqDirs) {
+                Add-SequenceFolder -Directory $s -Map $sequenceMap
+            }
+        }
     }
 
     $sequenceFolders = $sequenceMap.GetEnumerator() | ForEach-Object {