pyfigures 0.1.0__tar.gz

pyfigures-0.1.0/LICENSE

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+BSD 2-Clause License
+
+Copyright (c) 2024, baigouy
+
+Redistribution and use in source and binary forms, with or without
+modification, are permitted provided that the following conditions are met:
+
+1. Redistributions of source code must retain the above copyright notice, this
+   list of conditions and the following disclaimer.
+
+2. Redistributions in binary form must reproduce the above copyright notice,
+   this list of conditions and the following disclaimer in the documentation
+   and/or other materials provided with the distribution.
+
+THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
+AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
+IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE
+DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE LIABLE
+FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
+DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
+SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
+CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY,
+OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
+OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.

pyfigures-0.1.0/PKG-INFO

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+Metadata-Version: 2.1
+Name: pyfigures
+Version: 0.1.0
+Summary: PyFigures will assist you assemble publication ready scientific figures in no time.
+Home-page: https://github.com/baigouy/PyFigures
+Author: Benoit Aigouy
+Author-email: benoit.aigouy@gmail.com
+License: BSD
+Classifier: Programming Language :: Python :: 3
+Classifier: License :: OSI Approved :: BSD License
+Classifier: Operating System :: OS Independent
+Requires-Python: >=3.7, <3.11
+Description-Content-Type: text/markdown
+License-File: LICENSE
+Requires-Dist: czifile
+Requires-Dist: Markdown
+Requires-Dist: matplotlib>=3.5.2
+Requires-Dist: numpy
+Requires-Dist: Pillow>=8.1.2
+Requires-Dist: PyQt6
+Requires-Dist: read-lif
+Requires-Dist: scikit-image>=0.19.3
+Requires-Dist: scipy>=1.7.3
+Requires-Dist: scikit-learn>=1.0.2
+Requires-Dist: tifffile>=2021.11.2
+Requires-Dist: tqdm
+Requires-Dist: natsort
+Requires-Dist: numexpr
+Requires-Dist: urllib3
+Requires-Dist: qtawesome
+Requires-Dist: pandas
+Requires-Dist: numba
+Requires-Dist: elasticdeform
+Requires-Dist: roifile
+Requires-Dist: prettytable
+Requires-Dist: pyperclip
+Requires-Dist: QtPy>=2.1.0
+Requires-Dist: Deprecated
+Requires-Dist: Requests
+Requires-Dist: batoolset
+Requires-Dist: python-bioformats
+Requires-Dist: python-javabridge
+Requires-Dist: pyautogui
+
+# PyFigures
+
+Effortless creation of high-quality scientific figures in Python. 
+
+[![Watch the video](./images/PyFigures.png)](https://youtu.be/HSdCu-CW8eI)
+
+Since a video is better than a thousand (click on the image above to view the demo).
+
+# Install
+
+1. Install [Miniconda](https://docs.anaconda.com/miniconda/) (if not already present on your system)
+
+2. Then in a command prompt type: 
+
+```
+conda create -y -n PyFigures python==3.10.12
+conda activate PyFigures
+pip install -U pip
+pip install -U pyfigures
+python -m pyfigures
+```
+
+**NB**:
+- To open a **command prompt** on **Windows** press **Windows+R** then type **cmd**
+- To open a **command prompt** on **MacOS** press **Command+Space** then type **Terminal**
+- To open a **command prompt** on **Ubuntu** press **Ctrl+Alt+T**
+
+# Run
+
+To open the graphical user interface, type the following in a command:
+
+ ```
+conda activate PyFigures
+python -m pyfigures
+ ```
+   
+# Third party libraries
+
+Below is a list of the 3<sup>rd</sup> party libraries used by PyFigures.<br><br> <font color='red'>**IMPORTANTLY: if you disagree with any license below, <u>please uninstall PyFigures</u>**.<br></font>
+
+| Library name            | Use                                                         | Link                                          | License            |
+|-------------------------|-------------------------------------------------------------|-----------------------------------------------|--------------------|
+| **Markdown**            | Python implementation of Markdown                           | https://pypi.org/project/Markdown/            | BSD                |
+| **matplotlib**          | Plots images and graphs                                     | https://pypi.org/project/matplotlib/          | PSF                |
+| **numpy**               | Array/Image computing                                       | https://pypi.org/project/numpy/               | BSD                |
+| **Pillow**              | Reads 'basic' images (.bmp, .png, .pnm, ...)                | https://pypi.org/project/Pillow/              | HPND               |
+| **PyQt6**               | Graphical user interface (GUI)                              | https://pypi.org/project/PyQt6/               | GPL v3             |
+| **QtPy**               | An abstraction layer for PyQt and PySide                    | https://pypi.org/project/QtPy/               | MIT             |
+| **read-lif**            | Reads Leica .lif files                                      | https://pypi.org/project/read-lif/            | GPL v3             |
+| **czifile**             | Reads Zeiss .czi files                                      | https://pypi.org/project/czifile/             | BSD (BSD-3-Clause) |
+| **tifffile**            | Reads .tiff files (also reads Zeiss .lsm files)             | https://pypi.org/project/tifffile/            | BSD                |
+| **python-bioformats**               | A library to open scientific images                         | https://pypi.org/project/python-bioformats/               | GPLv2                |
+| **python-javabridge**               | A library to run java executables (required for bioformats) | https://pypi.org/project/python-javabridge/               | BSD                |
+| **scikit-image**        | Image processing                                            | https://pypi.org/project/scikit-image/        | BSD (Modified BSD) |
+| **scipy**               | Great library to work with numpy arrays                     | https://pypi.org/project/scipy/               | BSD                | 
+| **scikit-learn**               | Great library for machine learning                          | https://pypi.org/project/scikit-learn/               | BSD                | 
+| **tqdm**                | Command line progress                                       | https://pypi.org/project/tqdm/                | MIT, MPL 2.0       |
+| **natsort**             | 'Human' like sorting of strings                             | https://pypi.org/project/natsort/             | MIT                |
+| **numexpr**             | Speeds up image math                                        | https://pypi.org/project/numexpr/             | MIT                |
+| **urllib3**             | Model architecture and trained models download              | https://pypi.org/project/urllib3/             | MIT                |
+| **qtawesome**           | Elegant icons for PyQT/PySide                                       | https://pypi.org/project/QtAwesome/           | MIT                |
+| **pandas**              | Data analysis toolkit                                       | https://pypi.org/project/pandas/              | BSD (BSD-3-Clause) |
+| **numba**               | GPU acceleration of numpy ops                               | https://pypi.org/project/numba/               | BSD                |
+| **roifile**               | A library to read ImageJ ROIs                               | https://pypi.org/project/roifile/               | BSD 3-Clause                |
+

pyfigures-0.1.0/README.md

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+# PyFigures
+
+Effortless creation of high-quality scientific figures in Python. 
+
+[![Watch the video](./images/PyFigures.png)](https://youtu.be/HSdCu-CW8eI)
+
+Since a video is better than a thousand (click on the image above to view the demo).
+
+# Install
+
+1. Install [Miniconda](https://docs.anaconda.com/miniconda/) (if not already present on your system)
+
+2. Then in a command prompt type: 
+
+```
+conda create -y -n PyFigures python==3.10.12
+conda activate PyFigures
+pip install -U pip
+pip install -U pyfigures
+python -m pyfigures
+```
+
+**NB**:
+- To open a **command prompt** on **Windows** press **Windows+R** then type **cmd**
+- To open a **command prompt** on **MacOS** press **Command+Space** then type **Terminal**
+- To open a **command prompt** on **Ubuntu** press **Ctrl+Alt+T**
+
+# Run
+
+To open the graphical user interface, type the following in a command:
+
+ ```
+conda activate PyFigures
+python -m pyfigures
+ ```
+   
+# Third party libraries
+
+Below is a list of the 3<sup>rd</sup> party libraries used by PyFigures.<br><br> <font color='red'>**IMPORTANTLY: if you disagree with any license below, <u>please uninstall PyFigures</u>**.<br></font>
+
+| Library name            | Use                                                         | Link                                          | License            |
+|-------------------------|-------------------------------------------------------------|-----------------------------------------------|--------------------|
+| **Markdown**            | Python implementation of Markdown                           | https://pypi.org/project/Markdown/            | BSD                |
+| **matplotlib**          | Plots images and graphs                                     | https://pypi.org/project/matplotlib/          | PSF                |
+| **numpy**               | Array/Image computing                                       | https://pypi.org/project/numpy/               | BSD                |
+| **Pillow**              | Reads 'basic' images (.bmp, .png, .pnm, ...)                | https://pypi.org/project/Pillow/              | HPND               |
+| **PyQt6**               | Graphical user interface (GUI)                              | https://pypi.org/project/PyQt6/               | GPL v3             |
+| **QtPy**               | An abstraction layer for PyQt and PySide                    | https://pypi.org/project/QtPy/               | MIT             |
+| **read-lif**            | Reads Leica .lif files                                      | https://pypi.org/project/read-lif/            | GPL v3             |
+| **czifile**             | Reads Zeiss .czi files                                      | https://pypi.org/project/czifile/             | BSD (BSD-3-Clause) |
+| **tifffile**            | Reads .tiff files (also reads Zeiss .lsm files)             | https://pypi.org/project/tifffile/            | BSD                |
+| **python-bioformats**               | A library to open scientific images                         | https://pypi.org/project/python-bioformats/               | GPLv2                |
+| **python-javabridge**               | A library to run java executables (required for bioformats) | https://pypi.org/project/python-javabridge/               | BSD                |
+| **scikit-image**        | Image processing                                            | https://pypi.org/project/scikit-image/        | BSD (Modified BSD) |
+| **scipy**               | Great library to work with numpy arrays                     | https://pypi.org/project/scipy/               | BSD                | 
+| **scikit-learn**               | Great library for machine learning                          | https://pypi.org/project/scikit-learn/               | BSD                | 
+| **tqdm**                | Command line progress                                       | https://pypi.org/project/tqdm/                | MIT, MPL 2.0       |
+| **natsort**             | 'Human' like sorting of strings                             | https://pypi.org/project/natsort/             | MIT                |
+| **numexpr**             | Speeds up image math                                        | https://pypi.org/project/numexpr/             | MIT                |
+| **urllib3**             | Model architecture and trained models download              | https://pypi.org/project/urllib3/             | MIT                |
+| **qtawesome**           | Elegant icons for PyQT/PySide                                       | https://pypi.org/project/QtAwesome/           | MIT                |
+| **pandas**              | Data analysis toolkit                                       | https://pypi.org/project/pandas/              | BSD (BSD-3-Clause) |
+| **numba**               | GPU acceleration of numpy ops                               | https://pypi.org/project/numba/               | BSD                |
+| **roifile**               | A library to read ImageJ ROIs                               | https://pypi.org/project/roifile/               | BSD 3-Clause                |
+

pyfigures-0.1.0/pyfigures/__main__.py

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+from batoolset.settings.global_settings import set_UI
+set_UI()
+from qtpy.QtWidgets import QApplication
+from batoolset.img import start_JVM
+import sys
+from pyfigures.gui.pfgui import EZFIG_GUI
+
+
+
+
+
+def run_pyfigures():
+    """
+    Runs the PyFigures GUI.
+
+    This function sets the UI and initializes the QApplication.
+    The EPySeg PyFigures window is created and shown.
+    The application event loop is started and the program exits
+    when the GUI window is closed.
+
+    # Examples:
+    #     >>> run_pyfigures()
+    """
+
+    # start JVM to enable the bioformat image reader
+    start_JVM()
+
+    # Initialize the QApplication
+    app = QApplication(sys.argv)
+
+    if False:
+        # just a trick to override the default cursor...
+        from qtpy.QtGui import QCursor, QPixmap
+        # Load a custom cursor image
+        cursor_image = QPixmap("/home/aigouy/Téléchargements/cursor-mini.png")
+
+        # Create a custom cursor object with the cursor image
+        custom_cursor = QCursor(cursor_image)
+
+        # Set the custom cursor globally for the application
+        QApplication.setOverrideCursor(custom_cursor)
+
+    # Create and show the PyFigures GUI window
+    w = EZFIG_GUI()
+    w.show()
+
+    # Start the application event loop and exit when the GUI window is closed
+    sys.exit(app.exec_())
+
+
+if __name__ == '__main__':
+    # Run the PyFigures GUI
+    run_pyfigures()

pyfigures-0.1.0/pyfigures/gui/about_dialog_pzf.py

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+from batoolset.settings.global_settings import set_UI # set the UI to qtpy
+set_UI()
+from qtpy.QtWidgets import QApplication, QDialog, QVBoxLayout, QLabel, QPushButton
+from qtpy.QtCore import Qt
+import sys
+
+class AboutDialog(QDialog):
+    def __init__(self, parent=None, title="About My Software", name="My Software", version="Version 1.0.0", description="""
+        This is a brief description of My Software.
+        You can provide more information about its features and functionality here.
+        """, copyright="© 2023 Your Name", email='benoit.aigouy@gmail.com', ok_or_close="Ok"):
+        super().__init__(parent)
+
+        # Set dialog properties
+        self.setWindowTitle(title)
+        self.setMinimumWidth(400)
+
+        # Create layout
+        layout = QVBoxLayout(self)
+        layout.setAlignment(Qt.AlignCenter)
+
+        # Add application icon (optional)
+        # icon_label = QLabel(self)
+        # icon_label.setPixmap(QPixmap("path/to/your/icon.png")))
+        # layout.addWidget(icon_label)
+
+        # Add application name and version
+        name_label = QLabel(name, self)
+        name_label.setStyleSheet("font-size: 24px; font-weight: bold;")
+        layout.addWidget(name_label)
+
+        version_label = QLabel(version, self)
+        layout.addWidget(version_label)
+
+        # Add description
+        description_label = QLabel(description, self)
+        description_label.setWordWrap(True)
+        layout.addWidget(description_label)
+
+        # Add email label
+        email_label = QLabel(email, self)
+        email_label.setStyleSheet("font-weight: bold; color: blue;")
+        email_label.setOpenExternalLinks(True)
+        email_link = f'<a href="mailto:{email}">{email}</a>'
+        email_label.setText(email_link)
+        layout.addWidget(email_label)
+
+
+        # Add copyright and attribution
+        copyright_label = QLabel(copyright, self)
+        layout.addWidget(copyright_label)
+
+        # Add close button
+        close_button = QPushButton(ok_or_close, self)
+        close_button.clicked.connect(self.close)
+        layout.addWidget(close_button)
+
+        self.adjustSize()
+
+def main():
+    app = QApplication([])
+
+    # Show the About dialog
+    about_dialog = AboutDialog()
+    about_dialog.exec_()
+
+if __name__ == '__main__':
+    main()