All of the options now allow for the passing of an open git reference

src/main/java/com/neuronrobotics/bowlerstudio/scripting/ScriptingEngine.java

@@ -715,8 +715,10 @@ private static void deleteFolder(File folder) {
 		}
 
 	}
-
 	private static void loadFilesToList(ArrayList<String> f, File directory, String extnetion) {
+		loadFilesToList( f,  directory,  extnetion);
+	}
+	private static void loadFilesToList(ArrayList<String> f, File directory, String extnetion,Git ref) {
 		if (directory == null)
 			return;
 		for (final File fileEntry : directory.listFiles()) {
@@ -729,33 +731,37 @@ private static void loadFilesToList(ArrayList<String> f, File directory, String
 						continue;// skip this file as it fails the filter
 			// from the user
 			if (fileEntry.isDirectory()) {
-				loadFilesToList(f, fileEntry, extnetion);
+				loadFilesToList(f, fileEntry, extnetion,ref);
 			} else {
 
 				for (IScriptingLanguage l : langauges.values()) {
 					if (l.isSupportedFileExtenetion(fileEntry.getName())) {
-						f.add(findLocalPath(fileEntry));
+						f.add(findLocalPath(fileEntry,ref));
 						break;
 					}
 				}
 
 			}
 		}
 	}
-
 	public static ArrayList<String> filesInGit(String remote, String branch, String extnetion) throws Exception {
+		return filesInGit( remote,  branch,  extnetion,null);
+	}
+	public static ArrayList<String> filesInGit(String remote, String branch, String extnetion,Git ref) throws Exception {
 		ArrayList<String> f = new ArrayList<>();
 
 		// waitForLogin();
 		File gistDir = cloneRepo(remote, branch);
-		loadFilesToList(f, gistDir, extnetion);
+		loadFilesToList(f, gistDir, extnetion,ref);
 
 		return f;
 
 	}
-
 	public static ArrayList<String> filesInGit(String remote) throws Exception {
-		return filesInGit(remote, null, null);
+		return filesInGit(remote, null, null,null);
+	}
+	public static ArrayList<String> filesInGit(String remote,Git ref) throws Exception {
+		return filesInGit(remote, null, null,ref);
 	}
 
 	public static String getUserIdOfGist(String id) throws Exception {
@@ -859,7 +865,7 @@ public static void commit(String id, String branch, String FileName, String cont
 			if (!desired.getName().contentEquals("csgDatabase.json")) {
 				String[] gitID = ScriptingEngine.findGitTagFromFile(desired, gitRef);
 				String remoteURI = gitID[0];
-				ArrayList<String> f = ScriptingEngine.filesInGit(remoteURI);
+				ArrayList<String> f = ScriptingEngine.filesInGit(remoteURI,gitRef);
 				for (String s : f) {
 					if (s.contentEquals("csgDatabase.json")) {
 
@@ -869,7 +875,7 @@ public static void commit(String id, String branch, String FileName, String cont
 						CSGDatabase.saveDatabase();
 						@SuppressWarnings("resource")
 						String c = new Scanner(dbFile).useDelimiter("\\Z").next();
-						ScriptingEngine.commit(remoteURI, branch, s, c, "saving CSG database", false);
+						ScriptingEngine.commit(remoteURI, branch, s, c, "saving CSG database", false,gitRef);
 					}
 				}
 			}
@@ -1675,20 +1681,25 @@ public static File cloneRepo(String remoteURI, String branch) {
 		return gistDir;
 
 	}
-
-	public static String locateGitUrl(File f) throws IOException {
+	public static String locateGitUrl(File f) throws IOException{
+		return locateGitUrl(f,null);
+	}
+	public static String locateGitUrl(File f,Git ref) throws IOException {
 		File gitRepoFile = f;
 		while (gitRepoFile != null) {
 			gitRepoFile = gitRepoFile.getParentFile();
 			if (gitRepoFile != null)
 				if (new File(gitRepoFile.getAbsolutePath() + "/.git").exists()) {
 					// System.err.println("Fount git repo for file: "+gitRepoFile);
 					Repository localRepo = new FileRepository(gitRepoFile.getAbsoluteFile() + "/.git");
-					Git git = openGit(localRepo);
+					Git git=ref;
+					if(git==null)
+						git	= openGit(localRepo);
 					String url = git.getRepository().getConfig().getString("remote", "origin", "url");
 					if (!url.endsWith(".git"))
 						url += ".git";
-					closeGit(git);
+					if(ref==null)
+						closeGit(git);
 					return url;
 				}
 		}
@@ -1774,6 +1785,8 @@ private static File fileFromGistID(String string, String string2)
 	}
 
 	public static String findLocalPath(File currentFile, Git git) {
+		if(git==null)
+			return findLocalPath(currentFile);
 		File dir = git.getRepository().getDirectory().getParentFile();
 
 		return dir.toURI().relativize(currentFile.toURI()).getPath();
@@ -1800,7 +1813,7 @@ public static String[] findGitTagFromFile(File currentFile) throws IOException {
 	}
 
 	public static String[] findGitTagFromFile(File currentFile, Git ref) throws IOException {
-		String string = locateGitUrl(currentFile);
+		String string = locateGitUrl(currentFile,ref);
 		Git git = ref;
 		if (git == null)
 			git = locateGit(currentFile);