Bug when a simple "remux" should be done

MkvOpusEnc.py

@@ -127,19 +127,7 @@ def main():
     DIR_ORIGINAL.mkdir(exist_ok=True)
     DIR_LOGS.mkdir(exist_ok=True)
 
-    while True:
+    for file_path in files_to_process:
-        # Re-check for files in case new ones were added
-        files_to_process = sorted(
-            f for f in current_dir.glob("*.mkv")
-            if not f.name.startswith("temp-output-")
-        )
-
-        if not files_to_process:
-            print("No more .mkv files found to process. Exiting.")
-            break
-
-        file_path = files_to_process[0]
-        
         # Setup logging
         log_file_path = DIR_LOGS / f"{file_path.name}.log"
         log_file = open(log_file_path, 'w', encoding='utf-8')
@@ -171,7 +159,7 @@ def main():
 
             # 4. --- Prepare for Final mkvmerge Command ---
             processed_audio_files = []
-            audio_tracks_to_remux = []
+            tids_of_reencoded_tracks = []
             
             # 5. --- Process Each Audio Stream ---
             audio_streams = [s for s in ffprobe_info.get("streams", []) if s.get("codec_type") == "audio"]
@@ -182,18 +170,27 @@ def main():
                 continue
                 
             mkv_tracks_list = mkv_info.get("tracks", [])
+            mkv_audio_tracks = [t for t in mkv_tracks_list if t.get("type") == "audio"]
             media_tracks_data = media_info.get("media", {}).get("track", [])
             mediainfo_audio_tracks = {int(t.get("StreamOrder", -1)): t for t in media_tracks_data if t.get("@type") == "Audio"}
 
             print("\n=== Audio Track Analysis ===")
-            for stream in audio_streams:
+            for audio_stream_idx, stream in enumerate(audio_streams):
                 stream_index = stream["index"]
                 codec = stream.get("codec_name")
                 channels = stream.get("channels", 2)
                 language = stream.get("tags", {}).get("language", "und")
 
-                mkv_track = next((t for t in mkv_tracks_list if t.get("properties", {}).get("stream_id") == stream_index), {})
+                track_id = -1
+                mkv_track = {}
+                if audio_stream_idx < len(mkv_audio_tracks):
+                    mkv_track = mkv_audio_tracks[audio_stream_idx]
                     track_id = mkv_track.get("id", -1)
+
+                if track_id == -1:
+                    print(f"  -> Warning: Could not map ffprobe audio stream index {stream_index} to an mkvmerge track ID. Skipping this track.")
+                    continue
+
                 track_title = mkv_track.get("properties", {}).get("track_name", "")
                 
                 track_delay = 0
@@ -239,7 +236,7 @@ def main():
 
                 if codec in {"aac", "opus"}:
                     print(f"  -> Action: Remuxing track (keeping original {codec.upper()} {bitrate})")
-                    audio_tracks_to_remux.append(str(track_id))
+                    # This track will be kept from the original file, so we don't need to add it to a special list.
                 else:
                     bitrate_info = f"{codec.upper()} {bitrate}"
                     print(f"  -> Action: Re-encoding codec '{codec}' to Opus")
@@ -252,20 +249,23 @@ def main():
                         "Title": track_title,
                         "Delay": track_delay
                     })
+                    tids_of_reencoded_tracks.append(str(track_id))
 
             # 6. --- Construct and Execute Final mkvmerge Command ---
             print("\n=== Final MKV Creation ===")
             print("Assembling final mkvmerge command...")
             mkvmerge_args = ["mkvmerge", "-o", str(intermediate_output_file)]
 
-            # Part 1: Copy non-audio tracks (video, subs, etc.) from the source file.
+            # If no audio was re-encoded, we are just doing a full remux of the original file.
-            mkvmerge_args.extend(["--no-audio", str(file_path)])
+            if not processed_audio_files:
+                print("  -> All audio tracks are in the desired format. Performing a full remux.")
+                mkvmerge_args.append(str(file_path))
+            else:
+                # If we re-encoded audio, copy everything from the source EXCEPT the original audio tracks that we replaced.
+                mkvmerge_args.extend(["--audio-tracks", "!" + ",".join(tids_of_reencoded_tracks)])
+                mkvmerge_args.append(str(file_path))
                 
-            # Part 2: Copy audio tracks that should be remuxed from the same source file.
+                # Add the newly encoded Opus audio files.
-            if audio_tracks_to_remux:
-                mkvmerge_args.extend(["--audio-tracks", ",".join(audio_tracks_to_remux), str(file_path)])
-            
-            # Part 3: Add the newly encoded Opus audio files.
                 for file_info in processed_audio_files:
                     mkvmerge_args.extend(["--language", f"0:{file_info['Language']}"])
                     if file_info['Title']: