write rawfiles (single file) and read rawfiles in order (#66)

* read subfiles with unordered and missing frames

* save work debugging

* Revert "save work debugging"

This reverts commit e791992a05.

* Revert "read subfiles with unordered and missing frames"

This reverts commit 1177fd129d.

* throw when two frames have different frame numbers

* write single part RawFile (working beta)

* correct total number of frames in master file

* add new mythen file with syncd frames

* read frames with same frame number

* clang-tidy fixes, formatting, add tests

* improve readability in loop

* fix failing tests

---------

Co-authored-by: Bechir <bechir.brahem420@gmail.com>

data/mythen/correct_frame_numbers.py

@@ -0,0 +1,58 @@
+import numpy as np
+import shutil
+
+header_dt = np.dtype(
+    [
+        ("Frame Number", "u8"),
+        ("SubFrame Number/ExpLength", "u4"),
+        ("Packet Number", "u4"),
+        ("Bunch ID", "u8"),
+        ("Timestamp", "u8"),
+        ("Module Id", "u2"),
+        ("Row", "u2"),
+        ("Column", "u2"),
+        ("Reserved", "u2"),
+        ("Debug", "u4"),
+        ("Round Robin Number", "u2"),
+        ("Detector Type", "u1"),
+        ("Header Version", "u1"),
+        ("Packets caught mask", "8u8")
+    ]
+)
+
+# Read three frames from a jungfrau file with a single interface
+
+frames = 1
+parts = 4
+frame_per_file = 3
+bytes_per_pixel = 4
+frame_cols = 1
+frame_rows = 5120
+
+part_cols = 1280
+part_rows = 1
+
+header = np.zeros((frames,parts), dtype = header_dt)
+
+
+
+# verify that all parts have the same frame number
+frame = 0
+i = 55
+for part in range(parts):
+    file_name_r = f'scan242_d{part}_f{frame//frame_per_file}_{3}.raw'
+    file_name_w = f'CORRECTED_scan242_d{part}_f{frame//frame_per_file}_{3}.raw'
+    shutil.copyfile(file_name_r, file_name_w)
+
+    with open(file_name_r) as fr, open(file_name_w, 'r+b') as fw:
+        # get frame
+        offset = (frame%frame_per_file)*(header_dt.itemsize+part_rows*part_cols*bytes_per_pixel)
+        header[frame,part] = np.fromfile(fr, dtype=header_dt, count = 1,offset=offset)
+        # update frame number
+        header[frame,part]['Frame Number'] = i
+        fw.seek(offset)
+        header[frame,part].tofile(fw)
+
+
+print("[X] Done\n")
+