pingmapper 4.2.11__tar.gz → 4.2.13__tar.gz

{pingmapper-4.2.11 → pingmapper-4.2.13}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: pingmapper
-Version: 4.2.11
+Version: 4.2.13
 Summary: Open-source interface for processing recreation-grade side scan sonar datasets and reproducibly mapping benthic habitat
 Author: Cameron Bodine
 Author-email: bodine.cs@gmail.email

{pingmapper-4.2.11 → pingmapper-4.2.13}/pingmapper/class_rectObj.py

@@ -36,8 +36,13 @@ SCRIPT_DIR = os.path.dirname(os.path.abspath(__file__))
 PACKAGE_DIR = os.path.dirname(SCRIPT_DIR)
 sys.path.append(PACKAGE_DIR)
 
+# # For depug
+# from funcs_common import *
+# from class_sonObj import sonObj
+
 from pingmapper.funcs_common import *
 from pingmapper.class_sonObj import sonObj
+
 from osgeo import gdal, ogr, osr
 from osgeo_utils.gdal_sieve import gdal_sieve
 from scipy.interpolate import splprep, splev
@@ -1366,11 +1371,11 @@ class rectObj(sonObj):
 
         pix_m = self.pixM # Get pixel size
 
-        xPixMax, yPixMax = df[xPix].max().astype(int), df[yPix].max().astype(int)
+        xPixMax, yPixMax = int(df[xPix].max()), int(df[yPix].max())
 
         # Get extent of chunk
-        xMin, xMax = df[xCoord].min().astype(int), df[xCoord].max().astype(int)
-        yMin, yMax = df[yCoord].min().astype(int), df[yCoord].max().astype(int)
+        xMin, xMax = int(df[xCoord].min()), int(df[xCoord].max())
+        yMin, yMax = int(df[yCoord].min()), int(df[yCoord].max())
 
         # Setup outupt array
         # Determine output shape dimensions

{pingmapper-4.2.11 → pingmapper-4.2.13}/pingmapper/class_sonObj.py

@@ -741,6 +741,14 @@ class sonObj(object):
         for i in range(len(self.headIdx)):
             if ~np.isnan(self.headIdx[i]):
                 ping_len = min(self.pingCnt[i].astype(int), self.pingMax)
+
+
+                # #### Do not commit!!!!
+                # # if self.beamName == 'ss_star' or self.beamName == 'ss_port':
+                # #     ping_len *= 2
+                if not self.son8bit:
+                    ping_len *= 2
+
                 headIDX = self.headIdx[i].astype(int)
                 son_offset = self.son_offset[i].astype(int)
                 # pingIdx = headIDX + self.headBytes # Determine byte offset to sonar returns
@@ -755,7 +763,13 @@ class sonObj(object):
                     buffer = buffer[::-1]
 
                 # Read the data
-                dat = np.frombuffer(buffer, dtype='>u1')
+                if self.son8bit:# and self.beamName != 'ss_star' and self.beamName != 'ss_port':
+                    dat = np.frombuffer(buffer, dtype='>u1')
+                else:
+                    try:
+                        dat = np.frombuffer(buffer, dtype='>u2')
+                    except:
+                        dat = np.frombuffer(buffer[:-1], dtype='>u2')
 
                 try:
                     sonDat[:ping_len, i] = dat
@@ -764,7 +778,7 @@ class sonObj(object):
                     sonDat[:ping_len, i] = dat
         
         file.close()
-        self.sonDat = sonDat
+        self.sonDat = sonDat.astype(np.uint8)
         return
 
     # ======================================================================

{pingmapper-4.2.11 → pingmapper-4.2.13}/pingmapper/gui_main.py

@@ -10,10 +10,17 @@ SCRIPT_DIR = os.path.dirname(os.path.abspath(__file__))
 PACKAGE_DIR = os.path.dirname(SCRIPT_DIR)
 sys.path.append(PACKAGE_DIR)
 
+# # For Debug
+# from funcs_common import *
+# from main_readFiles import read_master_func
+# from main_rectify import rectify_master_func
+# from main_mapSubstrate import map_master_func
+
 from pingmapper.funcs_common import *
 from pingmapper.main_readFiles import read_master_func
 from pingmapper.main_rectify import rectify_master_func
 from pingmapper.main_mapSubstrate import map_master_func
+
 import json
 import pandas as pd
 
@@ -73,6 +80,7 @@ def gui(batch: bool):
         text_input = sg.Text('Recording to Process')
         # in_input = sg.In(key='inFile', size=(80,1))
         in_input = sg.In(key='inFile', size=(80,1), default_text=default_params['inFile'])
+        # browse_input = sg.FileBrowse(file_types=(("Sonar File", "*.DAT *.sl2 *.sl3 *.RSD *.svlog") ), initial_folder=os.path.dirname(default_params['inFile']))
         browse_input = sg.FileBrowse(file_types=(("Sonar File", "*.DAT *.sl2 *.sl3 *.svlog") ), initial_folder=os.path.dirname(default_params['inFile']))
 
     # Add to layout

{pingmapper-4.2.11 → pingmapper-4.2.13}/pingmapper/main_readFiles.py

@@ -44,14 +44,15 @@ sys.path.append(PACKAGE_DIR)
 from pingmapper.funcs_common import *
 from pingmapper.class_sonObj import sonObj
 from pingmapper.class_portstarObj import portstarObj
+
 import shutil
 from doodleverse_utils.imports import *
 
 from scipy.signal import savgol_filter
 
-# sys.path.insert(0, r'C:\Users\cbodine\PythonRepos\PINGVerter')
+# sys.path.insert(0, r'Z:\UDEL\PythonRepos\PINGVerter')
 
-from pingverter import hum2pingmapper, low2pingmapper, cerul2pingmapper
+from pingverter import hum2pingmapper, low2pingmapper, cerul2pingmapper#, gar2pingmapper
 
 import cv2
 
@@ -325,15 +326,26 @@ def read_master_func(logfilename='',
     elif file_type == '.sl2' or file_type == '.sl3':
         sonar_obj = low2pingmapper(inFile, projDir, nchunk, tempC, exportUnknown)
 
+    # # Prepare Garmin file for PINGMapper
+    # elif file_type == '.RSD':
+    #     sonar_obj = gar2pingmapper(inFile, projDir, nchunk, tempC, exportUnknown)
+
     # Prepare Cerulean file for PINGMapper
     elif file_type == '.svlog':
         sonar_obj = cerul2pingmapper(inFile, projDir, nchunk, tempC, exportUnknown)
         detectDep = 1 # No depth in cerulean files, so set to Zheng et al. 2021
 
+    # Unknown
+    else:
+        print('\n\nERROR!\n\nFile type {} not supported at this time.'.format(file_type))
+        sys.exit()
+
     ####################
     # Create son objects
     ####################
 
+    # print(sonar_obj)
+
     # Get available beams and metadata
     beamMeta = sonar_obj.beamMeta
 
@@ -359,6 +371,13 @@ def read_master_func(logfilename='',
         son.isOnix = sonar_obj.isOnix
         son.trans = sonar_obj.trans
         son.humDat = sonar_obj.humDat
+        # if son.beamName == 'ss_port' or son.beamName == 'ss_star':
+        #     son.son8bit = sonar_obj.son8bit
+        # else:
+        son.son8bit = sonar_obj.son8bit
+
+        # print(son.beamName, son.son8bit)
+
 
         if pix_res_son == 0:
             son.pix_res_son = 0

{pingmapper-4.2.11 → pingmapper-4.2.13}/pingmapper/main_rectify.py

@@ -38,6 +38,12 @@ SCRIPT_DIR = os.path.dirname(os.path.abspath(__file__))
 PACKAGE_DIR = os.path.dirname(SCRIPT_DIR)
 sys.path.append(PACKAGE_DIR)
 
+# # For Debug
+# from funcs_common import *
+# from class_rectObj import rectObj
+# from class_portstarObj import portstarObj
+# from funcs_rectify import smoothTrackline
+
 from pingmapper.funcs_common import *
 from pingmapper.class_rectObj import rectObj
 from pingmapper.class_portstarObj import portstarObj
@@ -412,7 +418,7 @@ def rectify_master_func(logfilename='',
             print('\n\tExporting', len(chunks), 'GeoTiffs for', son.beamName)
             # for i in chunks:
             #     son._rectSonRubber(i, filter, cog, wgs=False)
-            #     sys.exit()
+            #     # sys.exit()
             Parallel(n_jobs= np.min([len(chunks), threadCnt]))(delayed(son._rectSonRubber)(i, filter, cog, wgs=False) for i in tqdm(range(len(chunks))))
             son._cleanup()
             gc.collect()
@@ -444,7 +450,7 @@ def rectify_master_func(logfilename='',
         start_time = time.time()
         print("\nMosaicing GeoTiffs...")
         psObj = portstarObj(portstar)
-        if aoi or max_heading_deviation or min_speed or max_speed:
+        if aoi or max_heading_deviation or min_speed or max_speed or time_table:
             psObj._createMosaicTransect(mosaic, overview, threadCnt, son=True, maxChunk=mosaic_nchunk, cog=cog)
         else:
             psObj._createMosaic(mosaic, overview, threadCnt, son=True, maxChunk=mosaic_nchunk)

{pingmapper-4.2.11 → pingmapper-4.2.13}/pingmapper/test_time.py

@@ -17,5 +17,9 @@ converted_date = start_date + timedelta(seconds=custom_unix_time)
 eastern = pytz.timezone("US/Eastern")
 converted_date_eastern = converted_date.astimezone(eastern)
 
+print(start_date)
+print(unix_timestamp)
 print("Custom Unix Start Time:", unix_timestamp)
-print("Converted Date and Time:", converted_date_eastern)
+print(converted_date)
+print("Converted Date and Time:", converted_date_eastern)
+print(timedelta(seconds=custom_unix_time))

pingmapper-4.2.13/pingmapper/version.py

@@ -0,0 +1 @@
+__version__ = '4.2.13'

{pingmapper-4.2.11 → pingmapper-4.2.13}/pingmapper.egg-info/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: pingmapper
-Version: 4.2.11
+Version: 4.2.13
 Summary: Open-source interface for processing recreation-grade side scan sonar datasets and reproducibly mapping benthic habitat
 Author: Cameron Bodine
 Author-email: bodine.cs@gmail.email

pingmapper-4.2.11/pingmapper/version.py

@@ -1 +0,0 @@
-__version__ = '4.2.11'