Syncing last changes including rw permission bug fix

AMi_Image_Analysis.py

@@ -211,7 +211,7 @@ def initUI(self):
         self.radioButton_ScoreCrystal.setStyleSheet("""color: green;""")                                            
         self.radioButton_ScorePhaseSep.setStyleSheet("""color: orange;""")
         self.radioButton_ScoreOther.setStyleSheet("""color: magenta;""")
-        self.radioButton_ScoreUnknown.setStyleSheet("""background-color:yellow ; color: black;""")
+        self.radioButton_ScoreUnknown.setStyleSheet("""color: black;""")
 
         #Listen Scoring RadioButtons
         self.radioButton_ScoreClear.toggled.connect(lambda:self.ScoreDrop(self.radioButton_ScoreClear, self.currentWell))
@@ -367,17 +367,18 @@ def AutoCrop(self):
             return
 
         path=Path(self.imageDir).joinpath("cropped")
-        ensure_directory(path)
-
+        _f=ensure_directory(path)
+        if _f is not None: #if Permission issue
+            self.handle_error(f"> {_f}\n\nYou must change the permissions to continue")
+            return
+
         errors, error_list = 0, []
-
         count, size=0, len(self.files)
 
         progress = QProgressDialog("Processing files...", "Abort", 0, size)
         progress.setWindowTitle("AutoCrop")
         progress.setMinimumWidth(300)
         progress.setModal(True)
-
 
         for _file in self.files:
             progress.setValue(count+1)
@@ -980,19 +981,22 @@ def check_previous_notes(self, path, current_date):
                 return
             most_recent = self.compare_most_recent(most_recent, date)
         newPath = path.joinpath(current_date)
+        _f=ensure_directory(newPath)
+        if _f is not None: #if Permission issue
+            self.handle_error(f"> {_f}\n\nYou must change the permissions and reload the directory to continue")
+            return
+            # self.handle_error(f"> {ensure_directory(newPath)}\n\nThe program will quit")
+            # loop = QtCore.QEventLoop()
+            # QtCore.QTimer.singleShot(3000, loop.quit)
+            # loop.exec_()
+            # sys.exit()
 
-        if len(os.listdir(path)) !=0:
+        if len(os.listdir(path)) !=1: #if not first time more than one folder is present
             path=path.joinpath(most_recent)
-            ensure_directory(newPath)
-            if not newPath.exists():
-                newPath.mkdir()
-
             for file in path.iterdir():
                 copyfile(str(file), str(newPath.joinpath(file.name)))
             print("> Copied previous notes from: " + most_recent)
             print("> ")
-        else:
-            ensure_directory(newPath)
 
 
     def LoadNotes(self, path, date, well):

Changelog.txt

@@ -1,3 +1,7 @@
+2021/05/20
+Clicking a well in the Timeline spawns a new viewing window.
+Added the option to class as "Unknown" in the drop score section.
+
 2021/03/11:
 Default folder tree has one more folder (see case 2 in INSTALL.txt).
 If the local tree does not have this folder, use the following command at install "python3 Setup.py --no-ProjectID".

tools/Merge_AllNewPlates.py

@@ -18,8 +18,7 @@
 _rawimages="rawimages"
 
 __version__ = "0.1"
-__author__ = "Ludovic Pecqueur (ludovic.pecqueur \at college-de-france.fr)"
-__date__ = "04-03-2021"
+__date__ = "20-05-2021"
 __license__ = "New BSD http://www.opensource.org/licenses/bsd-license.php"
 
 

tools/SaveDiskSpace.py

@@ -10,6 +10,10 @@
 import shutil
 import argparse
 
+__version__ = "0.1"
+__date__ = "20-05-2021"
+__license__ = "New BSD http://www.opensource.org/licenses/bsd-license.php"
+
 #Define below the name of the folder containing unstacked Z images.
 _rawimages="rawimages"
 

utils.py

@@ -7,8 +7,11 @@ def ensure_directory(file_path):
     """Checks the given file path for a directory, and creates one if not already present.
     Args:
         file_path: a pathlib.Path
+    returns the err message if permission issue, else is None
     """
-    if not file_path.exists(): file_path.mkdir()
+    if not file_path.exists():
+        try: file_path.mkdir()
+        except Exception as err: return err
 
 
 class initProject(object):