added header reader to decoder

mscompress_onefile.py

@@ -67,7 +67,7 @@ def base64_encoder(number_array: np.ndarray, compress_method: str):
 def find_string(file_io_fp, mzml_read_fp, match_tag_start, match_tag_end,
                 data_format, spec_no, compression='auto'):
     start_time = time.time()
-    if compression=='zstd':
+    if compression.lower()=='zstd':
         compressor = zstandard.ZstdCompressor(threads=2)
     file_name = mzml_read_fp.name
     file_size = os.path.getsize(file_name)
@@ -202,8 +202,10 @@ def mzml_decoder(msz_file, mzml_file, compression='auto'):
     bmass_data = msz_fp.read(file_pos_array[3]-file_pos_array[2])
     bint_data = msz_fp.read(file_pos_array[5] - file_pos_array[4])
 
+    if compression == 'auto':
+        compression = file_head[180:184].decode('utf-8')
 
-    if compression=='zstd':
+    if compression.lower()=='zstd':
         decompressor = zstandard.ZstdDecompressor()
         bmass_data = decompressor.decompress(bmass_data)
         bint_data = decompressor.decompress(bint_data)
@@ -211,6 +213,7 @@ def mzml_decoder(msz_file, mzml_file, compression='auto'):
         smzml_file = smzml_data.decode('utf8').splitlines()
 
 
+
     # Create file pointers
     #print(smzml_file[:2])
     total_spec_no = int.from_bytes(bint_data[-4:], byteorder='little')
@@ -310,5 +313,5 @@ if __name__ == '__main__':
     start = time.time()
 
     output_mzml = r'K:\test\test\out2.mzML'
-    mzml_decoder(msz_output, output_mzml, compression=args.compression)
+    mzml_decoder(msz_output, output_mzml, compression='auto')
     print("total time for unpacking: %ss" % (time.time() - start))
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