batoolset 0.1.0__py3-none-any.whl

batoolset/serialization/tools.py

@@ -0,0 +1,1192 @@
+from batoolset.settings.global_settings import set_UI  # set the UI to qtpy
+set_UI()
+from builtins import int
+from batoolset.files.tools import read_string_from_file
+import xml.etree.ElementTree as ET
+import xml.dom.minidom
+from batoolset.draw.shapes.txt2d import TAText2D
+from batoolset.draw.shapes.Position import Position
+# from batoolset.serialization.tools import deserialize_to_dict
+
+
+# see key=='coords_as_list' and not key=='range': # excetptions that should not be written as texts even though they are texts for exceptions
+def object_to_xml(obj, element=None, keys_to_ignore=['img','renderer','doc','qimage'], is_list=False):
+    obj_dict = None
+    if element is None:
+        # if is_list:
+        #     element = ET.Element("list")
+        # else:
+            element = ET.Element(type(obj).__name__)
+
+    if hasattr(obj, 'to_dict'):
+        obj_dict = obj.to_dict()
+    elif isinstance(obj, (list, tuple)):
+        if is_list:
+            for item in obj:
+                child = ET.SubElement(element, type(item).__name__)
+                object_to_xml(item, child)
+        else:
+            obj_dict = [object_to_xml(item) for item in obj]
+    elif isinstance(obj, dict):
+        obj_dict = {k: object_to_xml(v) for k, v in obj.items()}
+    elif isinstance(obj, (str, int, float, bool)):
+        obj_dict = obj
+    else:
+        obj_dict = obj.__dict__
+    if isinstance(obj_dict, dict):
+        for key, value in obj_dict.items():
+            if keys_to_ignore and key in keys_to_ignore:
+                continue
+
+            child = ET.SubElement(element, key)
+
+            if isinstance(value, TAText2D):
+                child.text = value.getHtmlText()
+            elif isinstance(value, Position): # force serialization of Position as a string because it is much better
+                child.text = str(value)
+            elif isinstance(value, (list, tuple)):
+                    for item in value:
+                        grandchild = ET.SubElement(child, type(item).__name__)
+                        object_to_xml(item, grandchild) # --> this makes an infinite loop but just with the Image2D with annotation = []
+            # elif hasattr(value, '__dict__'):
+            #     object_to_xml(value, child)
+            else:
+                if isinstance(value, str) and not key=='coords_as_list' and not key=='range' and not key=='LUTs': # excetptions that should not be written as texts even though they are texts
+                    child.text = f'""{str(value)}""'
+                else:
+                    child.text = str(value)
+    else:
+        if obj_dict:
+            element.text = str(obj_dict)
+        else:
+            element.text = None
+
+    rough_string = ET.tostring(element, encoding='unicode', method='xml', xml_declaration=False)
+    reparsed = xml.dom.minidom.parseString(rough_string)
+    return reparsed.toprettyxml(indent="  ")
+
+def create_objects_from_dict(objects_dict):
+    annotations = []
+
+    if isinstance(objects_dict, dict):
+
+        for obj_type, parameters in objects_dict.items(): # big pb it does not save and store the right index of the object in the list -−> see how I  can do that and preserve it to sort them back
+            try:
+                if isinstance(parameters, list): # if there are many objects then one deserializes then all
+                    for parameter in parameters:
+                        annotations.append(create_object(obj_type, parameter))
+                else:
+                    annotations.append(create_object(obj_type, parameters))
+            except:
+                print(f'ERROR deserialization: {obj_type} with parameters {parameters}') # ok that is my error when there are many objects of the same type
+    else:
+        # dirty hack to recover annotations in the right order
+        for dct in objects_dict: # big pb it does not save and store the right index of the object in the list -−> see how I  can do that and preserve it to sort them back
+            obj_type, parameters = list(dct.items())[0]
+            try:
+                if isinstance(parameters, list): # if there are many objects then one deserializes then all
+                    for parameter in parameters:
+                        annotations.append(create_object(obj_type, parameter))
+                else:
+                    annotations.append(create_object(obj_type, parameters))
+            except:
+                print(f'ERROR deserialization: {obj_type} with parameters {parameters}') # ok that is my error when there are many objects of the same type
+    return annotations
+
+def clone_object(objects, auto_unpack_if_single=True, overrides=None): # overrides offers the possibility to mutate one of the parameters of the clone!
+    from batoolset.draw.shapes.image2d import Image2D
+    clones = []
+    if isinstance(objects, list) and not objects:
+        return clones
+    if not isinstance(objects, (Image2D, TAText2D)) and not objects:
+        return clones
+    # if objects is None:
+    #     return clones
+    # if not objects: # why is this shit considered to be empty
+    #     print('Error nothing to clone', objects, not objects)
+    #     return clones
+    if not isinstance(objects,list):
+        objects=[objects]
+    for object in objects:
+        xml_string = object_to_xml(object)
+        # get the class of the instance
+        instance_class = type(object)
+        # get the name of the class
+        class_name = instance_class.__name__
+        # print('in there', class_name, 'oubsi')
+        original_dict = deserialize_to_dict(xml_string)
+        if isinstance(overrides, dict):
+            original_dict.update(overrides)
+        clones.append(create_object(class_name, original_dict))
+    if auto_unpack_if_single and len(clones) == 1:
+        return clones[0]
+    return clones
+
+def create_object(object_type,properties):
+    from batoolset.draw.shapes.circle2d import Circle2D
+    from batoolset.draw.shapes.image2d import Image2D
+    from batoolset.draw.shapes.ellipse2d import Ellipse2D
+    from batoolset.draw.shapes.freehand2d import Freehand2D
+    from batoolset.draw.shapes.rectangle2d import Rectangle2D
+    from batoolset.draw.shapes.line2d import Line2D
+    from batoolset.draw.shapes.point2d import Point2D
+    from batoolset.draw.shapes.polygon2d import Polygon2D
+    from batoolset.draw.shapes.polyline2d import PolyLine2D
+    from batoolset.draw.shapes.scalebar import ScaleBar
+    from batoolset.draw.shapes.square2d import Square2D
+    from batoolset.draw.shapes.group import Group
+    from batoolset.draw.shapes.serializablefont import SerializableQFont
+    from batoolset.draw.shapes.serializableguiparams import SerializableGUIparameters
+
+    # print(object_type)
+
+    if  object_type == list.__name__:
+        return create_objects_from_dict(properties)
+    elif object_type == Image2D.__name__:
+        # I can code custom shit in there
+        # if not 'args' in properties and 'filename' in properties:
+        #     properties['args']=properties['filename']
+        # print('trying to create an image', properties)
+        return Image2D(**properties)
+    elif object_type == Line2D.__name__:
+        return Line2D(**properties)
+    elif object_type == TAText2D.__name__:
+        return TAText2D(**properties)
+    elif object_type == Point2D.__name__:
+        return Point2D(**properties)
+    elif object_type == Ellipse2D.__name__:
+        return Ellipse2D(**properties)
+    elif object_type == Circle2D.__name__:
+        return Circle2D(**properties)
+    elif object_type == Freehand2D.__name__:
+        return Freehand2D(**properties)
+    elif object_type == Polygon2D.__name__:
+        return Polygon2D(**properties)
+    elif object_type == PolyLine2D.__name__:
+        return PolyLine2D(**properties)
+    elif object_type == Rectangle2D.__name__:
+        return Rectangle2D(**properties)
+    elif object_type == Square2D.__name__:
+        return Square2D(**properties)
+    elif object_type == ScaleBar.__name__:
+        return ScaleBar(**properties)
+    elif object_type == Group.__name__:
+        return Group(**properties)
+    elif object_type == SerializableQFont.__name__:
+        # print('I am in there,', properties)
+        return SerializableQFont.from_dict(properties)
+    elif object_type == SerializableGUIparameters.__name__:
+        return SerializableGUIparameters(**properties)
+    else:
+        print(f'unknown type for deserialization {object_type}')
+
+
+def is_float(str):
+    try:
+        float(str)
+        return True
+    except:
+        return False
+
+
+def deserialize_to_dict(xml_string):
+    root = ET.fromstring(xml_string)
+    return element_to_dict(root)
+
+
+def process_value(value):
+    if value in ['None', 'True', 'False']:
+        if value == 'None':
+            value = None
+        elif value == 'True':
+            value = True
+        elif value == 'False':
+            value = False
+    elif isinstance(value, str) and value.startswith('""') and value.endswith('""'):
+        value = value[2:-2]
+    elif isinstance(value, str) and value.startswith('[') and value.endswith(']'):
+        value = eval(value)
+    elif value.isdigit():
+        value = int(value)
+    elif is_float(value):
+        value = float(value)
+    return value
+
+
+def element_to_dict_neo(element):
+    properties = {}
+
+    for child in element:
+        tag = child.tag
+        value = None
+
+        if list(child):  # check if current element has any sub-elements
+            # If the tag is 'annotations', we want to store a list of dictionaries
+            if tag == 'annotations':
+                value = []
+                for grandchild in child:
+                    grandchild_dict = element_to_dict(grandchild)
+                    value.append(grandchild_dict)
+            # For other tags with sub-elements, we store a single dictionary
+            else:
+                value = {}
+                for grandchild in child:
+                    if grandchild.tag == 'metadata' or grandchild.tag == 'positions' or grandchild.tag == 'annotations':
+                        continue
+                    else:
+                        grandchild_dict = element_to_dict(grandchild)
+                        value.update(grandchild_dict)
+        else:
+            value = child.text
+
+        # Process the value
+        value = process_value(value)
+
+        # If tag already exists in properties, append the new value to the list
+        if tag in properties:
+            if not isinstance(properties[tag], list):
+                properties[tag] = [properties[tag]]
+            properties[tag].append(value)
+        # If tag does not exist, add it with the new value
+        else:
+            properties[tag] = value
+
+    return properties
+
+def element_to_dict(element):
+    properties = {}
+
+    for child in element:
+        tag = child.tag
+
+        # print('tag',tag)
+
+        if list(child):  # check if current element has any sub-elements
+
+            if tag == 'annotations':
+                value = []
+                for grandchild in child:
+                    grandchild_dict = element_to_dict(grandchild)
+                    value.append({grandchild.tag:grandchild_dict})
+            else:
+                # Recursively parse sub-elements and store the resulting dictionary
+                # print('tag2',tag)
+                value = element_to_dict(child) # the second entrance create the pb
+                #
+                # if tag == 'annotations':
+                #     print('babidi', value) #
+        else:
+            value = child.text
+
+        if value is None:
+            value = {}
+            for grandchild in child:
+                if grandchild.tag == 'metadata':
+                    value = eval(grandchild.text)
+                elif grandchild.tag == 'positions':
+                    # print('INSIDE POSITIONS', grandchild.text)
+                    value[grandchild.tag] = eval(grandchild.text)
+                elif grandchild.tag == 'annotations':
+                    # print('inside annotations', grandchild)
+                    pass
+                else:
+                    value[grandchild.tag] = element_to_dict(grandchild)
+        else:
+            if isinstance(value, dict):
+                # If value is a dictionary, leave it as is
+                # print('ignored', tag, value)
+                # --> the annotations are ignored and they should not
+                # print('value ignored', tag, len(value)) # this is the dict of the values of the annotations --> somehow I need to take them
+                pass
+            elif value in ['None', 'True', 'False']:
+                if value == 'None':
+                    value = None
+                elif value == 'True':
+                    value = True
+                elif value == 'False':
+                    value = False
+            elif isinstance(value, str) and value.startswith('""') and value.endswith('""'):
+                value = value[2:-2]
+            elif isinstance(value, str) and value.startswith('[') and value.endswith(']'):
+                value = eval(value)  # recreate the dict from string
+            elif isinstance(value, list):
+                pass
+            elif value.isdigit():
+                value = int(value)
+            elif is_float(value):
+                value = float(value)
+
+        # if tag == 'annotations':
+        #     print('annotations--> ',tag, value)
+        # properties[tag] = value # if it contains it already it will override it --> that is the error
+        # Check if tag already exists in properties
+        if tag in properties:
+            # If tag already exists, check if the value is a list
+            if not isinstance(properties[tag], list):
+                # If the value is not a list, convert it to a list
+                properties[tag] = [properties[tag]]
+            # Append the new value to the list
+            properties[tag].append(value)
+        else:
+            # If tag does not exist, add it with the new value
+            properties[tag] = value
+
+    return properties
+
+
+def has_custom_script(xml_string):
+    root = ET.fromstring(xml_string)
+
+    # Find the custom_loading_script element anywhere in the XML
+    custom_script_tags = root.findall(".//custom_loading_script")
+
+    for custom_script_tag in custom_script_tags:
+        custom_script = custom_script_tag.text
+        if custom_script is not None and custom_script.strip() != 'None' and custom_script.strip():
+            return True
+
+    return False
+
+if __name__ == '__main__':
+    # from batoolset.serialization.tools import object_to_xml, create_object
+    from batoolset.settings.global_settings import set_UI  # set the UI to qtpy
+
+    set_UI()
+    from batoolset.draw.shapes.image2d import Rectangle2D
+    from qtpy.QtCore import QRect, Qt, QRectF
+    from batoolset.draw.shapes.image2d import Image2D
+    import numpy as np
+    import sys
+    from qtpy.QtWidgets import QApplication
+    from qtpy.QtGui import QFont
+    from batoolset.draw.shapes.group import Group
+    from batoolset.draw.shapes.serializablefont import SerializableQFont
+
+    app = QApplication(sys.argv)  # IMPORTANT KEEP !!!!!!!!!!!
+
+    if True:
+        img = Image2D('/E/Sample_images/sample_images_FIJI/first-instar-brain.tif')
+        # img.dimensions = {'order': 'tdhw', 'values': [15, 35]}
+        # img.LUTs = [None,'GREEN']
+        img.normalization = {
+            "min_range": 'toto',
+            "min_value": 0,
+            "max_range": 'tutu',
+            "max_value": 255,
+            "per_channel": True
+        }
+
+        print(img.normalization)
+
+        print(img.to_dict()['normalization'])
+        print(type(img.to_dict()['normalization']))
+
+        clone = clone_object(img)
+
+        print(clone.normalization)
+        print(type(clone.normalization))
+        print(clone.normalization == img.normalization)
+
+        print(clone.normalization['min_value']+1) # ça marche
+
+
+        sys.exit(0)
+
+    if True:
+        img = Image2D('/E/Sample_images/sample_images_FIJI/first-instar-brain.tif')
+        # img.dimensions = {'order': 'tdhw', 'values': [15, 35]}
+        # img.LUTs = [None,'GREEN']
+        img.projection = 'max'
+
+        print(img.projection)
+
+
+        print(img.to_dict()['projection'])
+        print(type(img.to_dict()['projection']))
+
+        clone = clone_object(img)
+
+        print(clone.projection)
+        print(clone.projection == img.projection)
+
+
+        sys.exit(0)
+
+    if True:
+        img = Image2D('/E/Sample_images/sample_images_FIJI/first-instar-brain.tif')
+        # img.dimensions = {'order': 'tdhw', 'values': [15, 35]}
+        # img.LUTs = [None,'GREEN']
+        img.channels = [True, False]
+
+        print(img.channels)
+
+
+        print(img.to_dict()['channels'])
+        print(type(img.to_dict()['channels']))
+
+        clone = clone_object(img)
+
+        print(clone.channels)
+        print(clone.channels == img.channels)
+
+
+        sys.exit(0)
+
+
+    if False:
+        img = Image2D('/E/Sample_images/sample_images_FIJI/confocal-series.tif')
+        # img.dimensions = {'order': 'tdhw', 'values': [15, 35]}
+        img.LUTs = [None,'GREEN']
+
+
+        print(img.LUTs)
+
+
+        print(img.to_dict()['LUTs'])
+        print(type(img.to_dict()['LUTs']))
+
+        clone = clone_object(img)
+
+        print(clone.LUTs)
+        print(clone.LUTs == img.LUTs)
+
+
+        sys.exit(0)
+
+
+    if True:
+
+        img = Image2D('/E/Sample_images/sample_images_denoise_manue/29-1_lif/ON 290119.lif - Series003.tif')
+        img.dimensions = {'order': 'tdhw', 'values': [15, 35]}
+
+
+
+        # print(img.to_dict()['dimensions'])
+        print(img.dimensions)
+
+
+        clone = clone_object(img)
+        print(clone.dimensions)
+
+        print(clone.dimensions == img.dimensions)
+        print(type(clone.dimensions), type(img.dimensions))
+
+        # very good -−> I need do some crazy stuff in qimage if not that
+
+
+
+
+
+
+        sys.exit(0)
+
+
+    if False:
+        script = """
+t = np.arange(0.0, 2.0, 0.01)
+s = 1 + np.sin(2 * np.pi * t)
+fig, ax = plt.subplots()
+print(type(fig))
+ax.plot(t, s)
+ax.set(xlabel='time (s)', ylabel='voltage (mV)', title=None)
+ax.grid()
+self.img = fig
+"""
+
+# IF INDENT OF SCRIPT IS INCORRECT THE THETA IS SET PROPERLY OTHERWISE IT'S NOT
+        # matplotlib_figure = Image2D(fig)
+
+        matplotlib_figure = Image2D(custom_loading_script=script, theta=-45) # if theta is set from there then it is not ok # the theta from there does not reach to the end --> due to super override
+        # without rotation they are all ok --> so I need to do the translation of the rotation - the non rotated
+        # matplotlib_figure.set_rotation(-45)
+
+        print('qsdsqdqsdqsdqssqd', matplotlib_figure.theta) # this is reset but where # --> not set if from there
+        print(matplotlib_figure.to_dict()['theta']) # why is this 0 ???
+        print(clone_object(matplotlib_figure).to_dict()['theta'])  # after cloning it is lost but why is that
+
+        sys.exit(0)
+
+
+    if False:
+        # very good --> I can also clone it --> see how I can add it to the stuff and then reload it
+
+        font = SerializableQFont()
+        font.setFamily('Arial')
+        font.setFamily('Comic Sans MS')
+        font.setPointSize(12)
+        font.setWeight(QFont.Normal)
+        font.setItalic(True)
+        font.background = 0xFF0000
+        font.foreground = 0x0000FF
+        font.placement = Position('top-right')
+
+        # Convert the SerializableQFont object to a dictionary
+        font_dict = font.to_dict()
+
+        xml_of_object =object_to_xml(font)
+        print(xml_of_object) # seems good
+
+        deser = deserialize_to_dict(xml_of_object) # this is also ok
+        print('deser',deser)
+
+        print(type(font).__name__)
+
+
+
+        clone = clone_object(font)
+
+        print(font_dict)
+        print(clone.to_dict())
+        print(clone.to_dict() == font_dict)
+
+
+
+        sys.exit(0)
+
+    if False:
+        txt = TAText2D('',placement=Position('center_h center_v'), range=[0,1])
+        print(object_to_xml(txt))
+        clone = clone_object(txt)
+        print(txt, clone) # -−> bingo this stuff is not clone properly if text is empty then it is deserialized as a list [] , also true for empty spaces but as soon as it is containing any non white space the n it gest cloned properly --> how can I fix that ???
+
+
+
+
+        sys.exit(0)
+
+
+
+    if False:
+
+        txt = TAText2D('this is a test',placement=Position('center_h center_v'), range=[0,1])
+
+        print(txt.range)
+
+        print('dabu',type(txt.to_dict()['range']))
+
+
+        print(object_to_xml(txt))
+
+        clone = clone_object(txt)
+
+        print(clone.range, type(clone.range)) # there is an error
+
+
+        print(clone.to_dict() == txt.to_dict()) # they are not the same but why --> is it because of placement ???
+
+        sys.exit(0)
+
+
+
+
+
+    if False:
+        xml_with_custom_script = """
+        <root>
+            <custom_loading_script>&quot;&quot;
+            import pandas as pd
+            import matplotlib.pyplot as plt
+            import numpy as np
+
+            # Read data using pandas
+            file_path = '/E/Sample_images/EZF_SF_scientifig_EZFig/sample_images_SF/sample_test_ScientFig/sample_data.txt'
+            data = pd.read_csv(file_path, sep='	')
+
+            # Replace comma with dot in 'Percentages' and 'Errors' columns
+            data['Percentages'] = data['Percentages'].str.replace(',', '.').astype(float)
+            data['Errors'] = data['Errors'].str.replace(',', '.').astype(float)
+
+            # Plotting
+            fig, ax = plt.subplots()
+
+            for genotype, group in data.groupby('Genotype'):
+                ax.errorbar(group['Polygon Class'], group['Percentages'], yerr=group['Errors'], label=genotype, marker='o')
+
+            ax.set_xlabel('Polygon Class')
+            ax.set_ylabel('Percentages')
+            ax.set_title('Polygon Class vs Percentages')
+            ax.legend()
+            plt.grid(True)
+
+            self.img=fig
+            &quot;&quot;</custom_loading_script>
+        </root>
+        """
+
+        xml_without_custom_script_1 = """
+        <root>
+            <custom_loading_script>None</custom_loading_script>
+        </root>
+        """
+
+        xml_without_custom_script_2 = """
+        <root>
+            <custom_loading_script/>
+            <custom_loading_script>None</custom_loading_script>
+            <custom_loading_script>None</custom_loading_script>
+            <custom_loading_script>None</custom_loading_script>
+        </root>
+        """
+
+        print(has_custom_script(xml_with_custom_script))  # Output: True
+        print(has_custom_script(xml_without_custom_script_1))  # Output: False
+        print(has_custom_script(xml_without_custom_script_2))  # Output: False
+
+        print(has_custom_script(read_string_from_file('/tmp/tmpppa9xdax/state_0.xml')))
+        print(has_custom_script(read_string_from_file('/tmp/tmpppa9xdax/state_1.xml')))
+        print(has_custom_script(read_string_from_file('/home/aigouy/Bureau/test.pyf')))
+        print(has_custom_script(read_string_from_file('/home/aigouy/Bureau/test_with_custom_script.pyf')))
+
+        img = Image2D(width=512, height=512)
+        img3 = Image2D(width=512, height=512)
+        print(has_custom_script(object_to_xml(img)))
+
+        img2 = Image2D(custom_loading_script='bqlsqjdqksdjlqskdlkqsj')
+        print(has_custom_script(object_to_xml(img2)))
+
+
+
+
+        grp = Group(img, img2)
+
+        # print(object_to_xml(grp))
+
+        print(has_custom_script(object_to_xml(grp))) # still does not work
+
+        grp = Group(img, img3, Group(img, img3))
+        print(has_custom_script(object_to_xml(grp)))  # still does not work
+
+        grp = Group(img, img3, Group(img, Group(img2)))
+        print(has_custom_script(object_to_xml(grp)))  # still does not work
+        sys.exit(0)
+
+
+    if True:
+        # img0 = Image2D(width=512, height=512, annotations=TAText2D('this is a test of your system', placement='center_h center_v'))
+        # img0 = Image2D(width=512, height=512,
+        #                annotations=[TAText2D('second', placement='center_h center_v', text_orientation='-Y')],
+        #                isText=True)
+
+        tmp2 = Image2D(width=512, height=512,
+                       annotations=[TAText2D('second', placement='center_h center_v', text_orientation='-Y'), Rectangle2D(0,0,120,150), TAText2D('third', placement='center_h center_v', text_orientation='-Y')],
+                       isText=True)
+        print(object_to_xml(tmp2))
+
+        copy = clone_object(tmp2)
+
+
+
+
+
+        print(type(copy.annotations), copy.annotations) # BUG HERE --> THE ORDER IS CHANGED -−> I NEED A PLAN B!!!
+        print(type(copy.img))
+        print(type(copy))
+        print(copy.isText)
+
+
+
+
+
+        sys.exit(0)
+
+
+    if True:
+        img0 = Image2D('/E/Sample_images/EZF_SF_scientifig_EZFig/sample_images_svg/test_asym_size.png')
+        img1 = Image2D('/E/Sample_images/EZF_SF_scientifig_EZFig/sample_images_svg/test.png')
+
+        img3 = Image2D('/E/Sample_images/EZF_SF_scientifig_EZFig/sample_images_svg/test.png')
+        img4 = Image2D('/E/Sample_images/EZF_SF_scientifig_EZFig/sample_images_svg/test.png')
+
+        grp = Group(img3, img4)
+
+        lst = [img0, img1, grp]
+
+        # try to serialize this stuff --> this can be seen as an image --> TODO
+        xml_string = object_to_xml(lst, is_list=True)
+
+        # print(xml_string)
+
+        properties = deserialize_to_dict(xml_string)
+        # print(properties)
+        clone = create_object(list.__name__, properties)
+
+        print(clone)
+
+        # now try to deserialize it
+
+        sys.exit(0)
+
+    if True:
+
+        if False:
+            rect = Rectangle2D(10, 16, 200, 512)
+            obj_type = Rectangle2D.__name__
+
+        if False:
+            rect = Ellipse2D(10, 16, 200, 512)
+            obj_type = Ellipse2D.__name__
+
+        if False:
+            rect = Circle2D(10, 16, 200)
+            obj_type = Circle2D.__name__
+
+        if False:
+            rect = Point2D(10, 16)
+            obj_type = Point2D.__name__
+
+        if False:
+            rect = Line2D(10, 16, 200, 512)
+            obj_type = Line2D.__name__
+
+        if False:
+            rect = Polygon2D(100, 100, 110, 100, 110, 120, 10, 120, 100, 100)
+            obj_type = Polygon2D.__name__
+
+        if False:
+            rect = PolyLine2D(100, 100, 110, 100, 110, 120, 10, 120, 100, 100)
+            obj_type = PolyLine2D.__name__
+
+        if False:  # no clue why they are ot equal because they seem to be...
+            rect = Square2D(10, 16, 200)
+            obj_type = Square2D.__name__
+
+        if False:
+            rect = Freehand2D(100, 100, 110, 100, 110, 120, 10, 120, 100, 100)
+            obj_type = Freehand2D.__name__
+
+        if False:
+            rect = TAText2D(
+                'this is a test of your system')  # they are nbot equal because of the doc --> no big deal and expected
+            obj_type = TAText2D.__name__
+
+        if False:
+            rect = TAText2D('this is a test of your system',
+                            placement='top-left')  # they are nbot equal because of the doc --> no big deal and expected
+            obj_type = TAText2D.__name__
+
+        if False:
+            rect = ScaleBar(10, legend='10µm',
+                            placement='top-left')  # they are nbot equal because of the doc --> no big deal and expected
+            obj_type = ScaleBar.__name__
+
+        if False:
+            rect = Image2D('/E/Sample_images/EZF_SF_scientifig_EZFig/sample_images_svg/test.png')
+            obj_type = Image2D.__name__
+
+        test_text = '''
+                </head><body style=" font-family:'Comic Sans MS'; font-size:22pt; font-weight:400; font-style:normal;">
+                <p style="color:#00ff00;"><span style=" color:#ff0000;">toto</span><br />tu<span style=" vertical-align:super;">tu</span></p>
+                '''
+        test_text2 = '''
+                    </head><body style=" font-family:'Comic Sans MS'; font-size:22pt; font-weight:400; font-style:normal;">
+                    <p style="color:#00ff00;"><span style=" color:#0000ff;">tititi</span>
+                    '''
+        test_text3 = '''
+                    </head><body style=" font-family:'Comic Sans MS'; font-size:22pt; font-weight:400; font-style:normal;">
+                    <p style="color:#00ff00;"><span style=" color:#00ffff;">tata</span>
+                    '''
+
+        if False:
+            img0 = Image2D('/E/Sample_images/EZF_SF_scientifig_EZFig/sample_images_svg/test_asym_size.png')
+            img1 = Image2D('/E/Sample_images/EZF_SF_scientifig_EZFig/sample_images_svg/test.png')
+            rect = img1
+            obj_type = Image2D.__name__
+
+            if True:
+                if True:
+                    img1.border_size = 3  # make sure it displays an edge
+                    # img1.annotations = []
+                    img1.annotations.append(img0)  # add an inset
+
+                if True:
+                    # img1.setLettering(TAText2D(text=test_text))
+                    img1.annotations.append(TAText2D(text=test_text, placement='top-left'))
+                    img1.annotations.append(TAText2D(text=test_text2, placement='top-left'))
+                    img1.annotations.append(Line2D(0, 0, img1.width() / 2, img1.height() / 2, stroke=3, color=0xFF00FF))
+                    img1.annotations.append(Rectangle2D(128, 128, 64, 128, stroke=3, color=0xFF00FF))
+                    img1.annotations.append(Point2D(img1.width() / 2, img1.height() / 2, stroke=6, color=0xFF00FF))
+                    img1.annotations.append(
+                        Ellipse2D(img1.width() / 2 - img1.width() / 8, img1.height() / 2 - img1.height() / 12,
+                                  img1.width() / 4, img1.height() / 6, stroke=3, color=0xFF00FF))
+                    img1.annotations.append(
+                        Circle2D(img1.width() / 2 - img1.width() / 10, img1.height() / 2 - img1.height() / 10,
+                                 img1.width() / 5, stroke=3, color=0xFF00FF))
+                    img1.annotations.append(
+                        Polygon2D(100, 100, 110, 100, 110, 120, 10, 120, 100, 100, color=0x0000FF, fill_color=0x00FFFF,
+                                  stroke=2))
+                    img1.annotations.append(PolyLine2D(10, 16, 20, 10, 20, 30, 40, 30, color=0xFF0000, stroke=2))
+                    img1.annotations.append(PolyLine2D(10, 16, 20, 10, 20, 30, 40, 30, color=0xFF0000, stroke=2))
+                    img1.annotations.append(Square2D(72.5, 151.5, 30, stroke=3))
+                    # img1.annotations.append(Freehand2D(10, 10, 20, 10, 20, 30, 288, 30, color=0xFFFF00, stroke=3))
+                    img1.annotations.append(
+                        Freehand2D(75, 25, 116.50, 50, 116.50, 100, 75, 125, 33.50, 100, 33.50, 50, color=0xFFFF00,
+                                   stroke=3))  # a beautiful hexagon !!!
+                    # try a floating text
+                    img1.annotations.append(TAText2D(x=img1.width() / 2, y=img1.height() / 2,
+                                                     text='<font color="#FFFF00">free floating text</font>'))
+                    img1.annotations.append(ScaleBar(30, '<font color="#FF00FF">right µm</font>',
+                                                     placement='top-right'))  # here I specify the bar to be top right specifically
+
+        if False:
+            img0 = Image2D('/E/Sample_images/EZF_SF_scientifig_EZFig/sample_images_svg/test_asym_size.png')
+            img1 = Image2D('/E/Sample_images/EZF_SF_scientifig_EZFig/sample_images_svg/test.png')
+            img1.annotations.append(TAText2D(text=test_text, placement='top-left'))
+            img1.annotations.append(TAText2D(text=test_text2, placement='top-left'))
+            img1.annotations.append(Line2D(0, 0, img1.width() / 2, img1.height() / 2, stroke=3, color=0xFF00FF))
+            img1.annotations.append(Rectangle2D(128, 128, 64, 128, stroke=3, color=0xFF00FF))
+            rect = Group(img0, img1)
+            obj_type = Group.__name__
+
+        rect.translate(120, 160)
+        if isinstance(rect, Image2D):
+            print('init Image', rect.img.shape)
+
+        print('to_dict orig', rect.to_dict())
+
+        # if True:
+        #     print(type(rect.to_dict()['coords_as_list']), rect.to_dict()['coords_as_list'], rect.to_dict()['coords_as_list'][0])
+        # all is ok --> error is somewhere else then
+
+        print('orig', rect)
+
+        print('orig rect', rect.getRect())
+
+        xml_string = object_to_xml(rect)
+
+        if False:
+            print('#' * 20)
+            print(xml_string)
+            print('#' * 20)
+
+        properties = deserialize_to_dict(xml_string)
+        if False:
+            print(properties)
+            print(len(properties['annotations']))  # only 12 --> that is not the pb
+            print(properties['annotations'])
+            for elm, value in properties['annotations'].items():
+                if elm == 'TAText2D':
+                    print(elm, len(value), type(value), type(value[
+                                                                 1]))  # value is a list of dict --> bingo I wil manage soon # ok so there are 14 stored in there and that is what I missed --> try to fix it -> this is a list so that is why I failed
+                    # print(value)
+                    for txt in value:  # why is first value None ???
+                        print(txt)
+                    print(value)
+            sys.exit(0)
+
+        clone = create_object(obj_type, properties)
+
+        if isinstance(clone, Image2D):
+            print('copy Image', clone.img)
+
+        print('clone', clone)
+
+        print('to_dict clone', clone.to_dict())
+        print('clone rect', clone.getRect())
+
+        print('equal', rect == clone)
+
+        print('types', type(rect), type(clone))
+
+        try:
+            print('initial', rect.x(), rect.y(), rect.width(), rect.height())  # all ok
+            print('clone', clone.x(), clone.y(), clone.width(), clone.height())  # all 0
+        except:
+            pass  # no big deal if fails
+
+        success = False
+        try:
+            print('equal dict', rect.__dict__ == clone.__dict__)
+            success = rect.__dict__ == clone.__dict__
+        except:
+            print('skipping equal dict')
+
+        if not success:
+            for k1, v1 in rect.__dict__.items():
+                for k2, v2 in clone.__dict__.items():
+                    if k1 == k2:
+                        if k1 in ['doc', 'img']:
+                            continue
+                        try:
+                            if v1 != v2:
+                                if isinstance(v2, Position):
+                                    if str(v2) == str(v1):
+                                        continue
+                                print('not same values for', k1, v1, 'vs', v2, type(v1), type(v2))
+                        except:
+                            print(v1, 'vs', v2)
+
+        xml_of_clone = object_to_xml(clone)
+        print('serialization equality', xml_string == xml_of_clone)
+
+        if False:
+            if xml_string != xml_of_clone:
+                print('#' * 30)
+                print(xml_of_clone)
+                print('#' * 30)
+
+                import difflib
+
+                # string1 = "This is the first string."
+                # string2 = "This is the second string."
+
+                diff = difflib.ndiff(xml_string.splitlines(), xml_of_clone.splitlines())
+
+                print('difference:')
+                print(" vs ".join(diff))
+                # for dif in diff:
+                #     print(dif)
+                # print(diff)
+
+        if isinstance(rect, Image2D):
+            print('annitations nb', len(rect.annotations),
+                  len(clone.annotations))  # 15 texts are missing --> the error is in deserialization because serilaization is ok
+
+        sys.exit(0)
+
+    if False:  # old
+        # if this is a string --> make it save as '''value''' -−> unpack it --> maybe need an extra check for a count of the values or maybe use """ or maybe use something unique so that it does not compete with python such as two '' or two "" at beginning and at the end
+
+        img1 = Image2D('/E/Sample_images/EZF_SF_scientifig_EZFig/sample_images_svg/test.png')
+        img0 = Image2D('/E/Sample_images/EZF_SF_scientifig_EZFig/sample_images_svg/test_asym_size.png')
+        test_text = '''
+            </head><body style=" font-family:'Comic Sans MS'; font-size:22pt; font-weight:400; font-style:normal;">
+            <p style="color:#00ff00;"><span style=" color:#ff0000;">toto</span><br />tu<span style=" vertical-align:super;">tu</span></p>
+            '''
+        test_text2 = '''
+                </head><body style=" font-family:'Comic Sans MS'; font-size:22pt; font-weight:400; font-style:normal;">
+                <p style="color:#00ff00;"><span style=" color:#0000ff;">tititi</span>
+                '''
+        test_text3 = '''
+                </head><body style=" font-family:'Comic Sans MS'; font-size:22pt; font-weight:400; font-style:normal;">
+                <p style="color:#00ff00;"><span style=" color:#00ffff;">tata</span>
+                '''
+
+        if True:
+            if True:
+                img1.border_size = 3  # make sure it displays an edge
+                # img1.annotations = []
+                img1.annotations.append(img0)  # add an inset
+
+            if True:
+                # img1.setLettering(TAText2D(text=test_text))
+                img1.annotations.append(TAText2D(text=test_text, placement='top-left'))
+                img1.annotations.append(TAText2D(text=test_text2, placement='top-left'))
+                img1.annotations.append(TAText2D(text=test_text3, placement='top-left'))
+
+                img1.annotations.append(TAText2D(text=test_text, placement='bottom-right'))
+                img1.annotations.append(TAText2D(text=test_text2, placement='bottom-right'))
+                img1.annotations.append(TAText2D(text=test_text3, placement='bottom-right'))
+
+                img1.annotations.append(TAText2D(text=test_text, placement='bottom-left'))
+                img1.annotations.append(TAText2D(text=test_text2, placement='bottom-left'))
+
+                img1.annotations.append(TAText2D(text=test_text, placement='top-right'))
+                img1.annotations.append(TAText2D(text=test_text2, placement='top-right'))
+
+                img1.annotations.append(TAText2D(text=test_text, placement='center_h-center_v'))
+                img1.annotations.append(TAText2D(text=test_text2, placement='center_h-center_v'))
+
+                # print('TADAM',img1.width()/2., img1.height()/2.)
+                img1.annotations.append(Line2D(0, 0, img1.width() / 2, img1.height() / 2, stroke=3, color=0xFF00FF))
+                img1.annotations.append(Rectangle2D(128, 128, 64, 128, stroke=3, color=0xFF00FF))
+                img1.annotations.append(Point2D(img1.width() / 2, img1.height() / 2, stroke=6, color=0xFF00FF))
+                img1.annotations.append(
+                    Ellipse2D(img1.width() / 2 - img1.width() / 8, img1.height() / 2 - img1.height() / 12,
+                              img1.width() / 4, img1.height() / 6, stroke=3, color=0xFF00FF))
+                img1.annotations.append(
+                    Circle2D(img1.width() / 2 - img1.width() / 10, img1.height() / 2 - img1.height() / 10,
+                             img1.width() / 5, stroke=3, color=0xFF00FF))
+                img1.annotations.append(
+                    Polygon2D(100, 100, 110, 100, 110, 120, 10, 120, 100, 100, color=0x0000FF, fill_color=0x00FFFF,
+                              stroke=2))
+                img1.annotations.append(PolyLine2D(10, 16, 20, 10, 20, 30, 40, 30, color=0xFF0000, stroke=2))
+                img1.annotations.append(PolyLine2D(10, 16, 20, 10, 20, 30, 40, 30, color=0xFF0000, stroke=2))
+                img1.annotations.append(Square2D(72.5, 151.5, 30, stroke=3))
+                # img1.annotations.append(Freehand2D(10, 10, 20, 10, 20, 30, 288, 30, color=0xFFFF00, stroke=3))
+                img1.annotations.append(
+                    Freehand2D(75, 25, 116.50, 50, 116.50, 100, 75, 125, 33.50, 100, 33.50, 50, color=0xFFFF00,
+                               stroke=3))  # a beautiful hexagon !!!
+
+                # try a floating text
+                img1.annotations.append(TAText2D(text='<font color="#FF0000">top left by coords</font>'))
+                img1.annotations.append(TAText2D(x=img1.width() / 2, y=img1.height() / 2,
+                                                 text='<font color="#FFFF00">free floating text</font>'))
+                img1.annotations.append(
+                    ScaleBar(30, '<font color="#FF00FF">10µm</font>'))  # default scale bar placement is bottom right
+                img1.annotations.append(ScaleBar(30, '<font color="#FF00FF">right µm</font>',
+                                                 placement='top-right'))  # here I specify the bar to be top right specifically
+        # very good now try
+
+        img1.scale = 0.5
+
+        # print(img1.width())
+        # print(img1.height())
+
+        # print(same_img.__dict__)
+        xml_string = object_to_xml(img1)
+
+        print(xml_string)
+        print('#' * 40)
+
+        # xml_string = '''<?xml version="1.0" ?>
+        # <Rectangle2D>
+        #   <color>""16776960""</color>
+        #   <fill_color>None</fill_color>
+        #   <stroke>0.65</stroke>
+        #   <opacity>1.0</opacity>
+        #   <isSet>False</isSet>
+        #   <scale>1</scale>
+        #   <line_style>None</line_style>
+        #   <theta>0</theta>
+        #   <incompressible_width>0</incompressible_width>
+        #   <incompressible_height>0</incompressible_height>
+        #   <immutable>False</immutable>
+        #   <__init_called__>True</__init_called__>
+        # </Rectangle2D>'''
+
+        # test ='16776960'
+
+        # print(test.isdigit())
+        # print(int(test)+1)
+
+        properties = deserialize_to_dict(xml_string)
+        if 'filename' in properties:
+            properties['args'] = properties['filename']
+        print('#' * 2000)
+        print(properties)
+        print('#-' * 2000)
+
+        # rect = xml_to_object(xml_string)
+        # print(rect.__dict__)
+
+        # print(rect.__dict__ == same_img.__dict__)
+
+        # plt.imshow(rect.img)
+        # plt.show()
+
+        rect = Image2D(**properties)
+        print('testing keys', rect.__dict__.keys() == img1.__dict__.keys())
+
+        # removing the image is required for that
+        # rect.__dict__['img']=None
+        # same_img.__dict__['img']=None
+
+        try:
+            print(rect.__dict__ == img1.__dict__)
+        except:
+            # Check all pairwise comparisons between the dictionaries
+            for k1, v1 in rect.__dict__.items():
+                for k2, v2 in img1.__dict__.items():
+                    if k1 == k2:
+                        try:
+                            if v1 != v2 or abs(v1 - v2) > 1e-9:
+                                if isinstance(v2, Position):
+                                    if str(v2) == str(v1):
+                                        continue
+
+                                print('not same values for', k1, v1, 'vs', v2, type(v1), type(v2))
+                                if k1 == 'annotations':
+                                    # print(type(v1))
+                                    # k1 = eval(v1)
+                                    # print(type(k1))
+                                    if v1:
+                                        for key, val in v1.items():
+                                            print(key, '-->', val)
+                                            try:
+                                                print(create_object(key, val))
+                                            except:
+                                                traceback.print_exc()
+                                    # bingo -−> can be easy TODO too -−> do deserialize that too!!
+                                # else:
+
+                        except:
+                            if not np.array_equal(v1, v2):
+                                print('images', k1, 'not the same')
+                        # if not np.array_equal(v1, v2):
+                        #     print(f"Error: The '{k1}' arrays are not equal.")
+                        #     print(f"Array 1: {v1}")
+                        #     print(f"Array 2: {v2}")
+                        #     print()
+                        # pass
+                    # else:
+                    #     print(f"Error: The dictionaries have different keys: '{k1}' and '{k2}'.")
+
+        '''
+        there is a minor bug due to:
+
+        'placement':<pyfigures.gui.Position.Position object at 0x7fded71d1480>
+        <placement>
+            <positions>{'top': True, 'bottom': False, 'left': False, 'right': True, 'center_h': False, 'center_v': False}</positions>
+        </placement>
+
+        # see how I can fix that
+        '''
+
+        print(rect, img1)  # -> that rougly seems to work
+        # --> see how to handle the things that need to be duplicated
+
+        if False:
+            test2 = Rectangle2D(
+                QRectF(10, 0, 100, 256))  # the serialization is great but now I need to see how to reload the shit
+
+            print(test2)
+
+            if True:
+                xml_string = object_to_xml(test2)
+
+            rect = deserialize_rectangle2d(xml_string)
+            print(rect.__dict__)
+
+            print(rect)
+
+            print(
+                rect == test2)  # very good --> that works and that is cool --> these are really two objects but they are interchangeable
+            print(test2.__dict__)
+
+            print(test2.__dict__ == rect.__dict__)
+
+        # print
+
+#
+#
+# if __name__ == '__main__':
+#     from batoolset.settings.global_settings import set_UI  # set the UI to qtpy
+#
+#     set_UI()
+#     from batoolset.draw.shapes.image2d import Rectangle2D
+#     from qtpy.QtCore import QRect, Qt, QRectF
+#
+#     test2 = Rectangle2D(QRectF(10, 0, 100, 256)) # the serialization is great but now I need to see how to reload the shit
+#     xml_version =object_to_xml(test2)
+#     print(xml_version)
+#
+#     print('Deserialization')
+#
+#     # print(xml_to_object(xml_version))
+#
+#
+#     if False:
+#         from batoolset.draw.shapes.image2d import Image2D
+#
+#
+#         same_img = Image2D('/E/Sample_images/EZF_SF_scientifig_EZFig/sample_images_svg/test.png')
+#         same_img.scale = 0.5
+#
+#         print(same_img.width())
+#         print(same_img.height())
+#
+#
+#         # when it loops into position it should just get the position as a string
+#
+#
+#         # see also how to handle the embedded images -> shall I store them separately or not
+#         # can I use magic unique names to avoid repetitions ???
+#
+#
+#
+#         print(object_to_xml(same_img))
+#
+#
+#         # try to reload it maybe
+
+