pytomography 3.2.4__tar.gz → 3.3.2__tar.gz

{pytomography-3.2.4 → pytomography-3.3.2}/PKG-INFO

@@ -1,10 +1,11 @@
-Metadata-Version: 2.3
+Metadata-Version: 2.4
 Name: pytomography
-Version: 3.2.4
+Version: 3.3.2
 Summary: Package to perform tomographic image reconstruction
 Project-URL: Homepage, https://github.com/qurit/PyTomography
 Project-URL: Bug Tracker, https://github.com/qurit/PyTomography/issues
 Author-email: Luke Polson <lukepolson@outlook.com>
+License-File: LICENSE
 Classifier: License :: OSI Approved :: MIT License
 Classifier: Operating System :: OS Independent
 Classifier: Programming Language :: Python :: 3
@@ -44,9 +45,14 @@ Description-Content-Type: text/markdown
 ![Stars](https://img.shields.io/github/stars/qurit/PyTomography)
 ![Issues](https://img.shields.io/github/issues/qurit/PyTomography)
 
-## How to get started?
+# Getting Started
 We have prepared a very detailed documentation guide available at [readthedocs](https://pytomography.readthedocs.io/en/latest/). If you have any additional questions, please ask them on the [discourse website](https://pytomography.discourse.group/).
 
+# Research Paper
+If you use PyTomography in your own research, please cite the corresponding research paper:
+
+**Lucas A. Polson, Roberto Fedrigo, Chenguang Li, Maziar Sabouri, Obed Dzikunu, Shadab Ahamed, Nicolas Karakatsanis, Sara Kurkowska, Peyman Sheikhzadeh, Pedro Esquinas, Arman Rahmim, and Carlos Uribe.** *PyTomography: A python library for medical image reconstruction.* SoftwareX, Volume 29, 2025, Page 102020. https://www.sciencedirect.com/science/article/pii/S235271102400390X
+
 # License
 This work is licensed under an MIT license, as is found in the LICENSE file.
 

{pytomography-3.2.4 → pytomography-3.3.2}/README.md

@@ -7,9 +7,14 @@
 ![Stars](https://img.shields.io/github/stars/qurit/PyTomography)
 ![Issues](https://img.shields.io/github/issues/qurit/PyTomography)
 
-## How to get started?
+# Getting Started
 We have prepared a very detailed documentation guide available at [readthedocs](https://pytomography.readthedocs.io/en/latest/). If you have any additional questions, please ask them on the [discourse website](https://pytomography.discourse.group/).
 
+# Research Paper
+If you use PyTomography in your own research, please cite the corresponding research paper:
+
+**Lucas A. Polson, Roberto Fedrigo, Chenguang Li, Maziar Sabouri, Obed Dzikunu, Shadab Ahamed, Nicolas Karakatsanis, Sara Kurkowska, Peyman Sheikhzadeh, Pedro Esquinas, Arman Rahmim, and Carlos Uribe.** *PyTomography: A python library for medical image reconstruction.* SoftwareX, Volume 29, 2025, Page 102020. https://www.sciencedirect.com/science/article/pii/S235271102400390X
+
 # License
 This work is licensed under an MIT license, as is found in the LICENSE file.
 

{pytomography-3.2.4 → pytomography-3.3.2}/docs/source/index.rst

@@ -2,12 +2,12 @@
 PyTomography
 ************************
 
-**Useful links:** `Installation <install.html>`_ | `Tutorials <usage.html>`_ | `API Reference <autoapi/index.html>`_ 
+**Useful links:** `Installation <install.html>`_ | `Tutorials <usage/usage.html>`_ | `API Reference <autoapi/index.html>`_ 
 
 ``PyTomography`` is a python library for tomographic reconstruction of medical imaging data. It provides a modularized framework for the construction and development of system matrices, likelihoods, and reconstruction algorithms.
 
 .. note::
-     If you use PyTomography in your research, please cite `the corresponding research paper <https://arxiv.org/abs/2309.01977>`_.
+     If you use PyTomography in your research, please cite `the corresponding research paper <https://www.sciencedirect.com/science/article/pii/S235271102400390X>`_.
 
 ++++++++++++++++
 Getting Started

{pytomography-3.2.4 → pytomography-3.3.2}/docs/source/notebooks/run_all_notebooks.py

@@ -5,25 +5,27 @@ os.environ['PYDEVD_DISABLE_FILE_VALIDATION'] = '1'
 
 tutorials = [
     # SPECT Tutorials
-    #'t_siminddata.ipynb',
-    #'t_dicomdata.ipynb',
-    #'t_algorithms.ipynb',
-    #'t_dicommultibed.ipynb',
-    #'t_dualpeak.ipynb',
-    #'t_uncertainty_spect.ipynb',
-    #'t_ac225_dicom_recon.ipynb',
-    #'t_ac225_simind_recon.ipynb',
+    't_siminddata.ipynb',
+    't_dicomdata.ipynb',
+    't_algorithms.ipynb',
+    't_dicommultibed.ipynb',
+    't_dualpeak.ipynb',
+    't_uncertainty_spect.ipynb',
+    't_ac225_dicom_recon.ipynb',
+    't_ac225_simind_recon.ipynb',
+    # t_spect_mc.ipynb,
+    # t_spect_mc2.ipynb,
     # PET Tutorials
     #'t_PETGATE_scat_sino.ipynb',
     #'t_PETGATE_scat_sinoTOF.ipynb',
     #'t_PETGATE_scat_lm.ipynb',
     #'t_PETGATE_scat_lmTOF.ipynb',
-    't_PETGATE_DIP.ipynb',
-    #'t_GE_HDF5.ipynb',
+    #'t_PETGATE_DIP.ipynb',
+    't_GE_HDF5.ipynb',
     # CT Tutorials
     #'t_CT_GEN3.ipynb',
     # Development Tutorials
-    #'t_examplesystemmatrix.ipynb'
+    't_examplesystemmatrix.ipynb'
 ]
 
 for tutorial in tutorials: