Increment version to 5.0.0dev.

Author: baagaard-usgs

configure.ac

@@ -10,7 +10,7 @@ dnl ============================================================================
 dnl Process this file with autoconf to produce a configure script.
 
 AC_PREREQ(2.59)
-AC_INIT([PyLith], [4.2.0], [https://geodynamics.org/resources/pylith])
+AC_INIT([PyLith], [5.0.0dev], [https://geodynamics.org/resources/pylith])
 AC_CONFIG_AUX_DIR([./aux-config])
 AC_CONFIG_HEADER([portinfo])
 AC_CONFIG_MACRO_DIR([m4])

docs/conf.py

@@ -17,12 +17,12 @@
 
 # -- Project information -----------------------------------------------------
 
-project = 'PyLith'
-copyright = '2010-2025, University of California, Davis'
-author = 'Brad T. Aagaard, Matthew G. Knepley, Charles A. Williams'
+project = "PyLith"
+copyright = "2010-2025, University of California, Davis"
+author = "Brad T. Aagaard, Matthew G. Knepley, Charles A. Williams"
 
 # The full version, including alpha/beta/rc tags
-release = '4.2.0'
+release = "5.0.0dev"
 
 
 # -- General configuration ---------------------------------------------------
@@ -46,7 +46,7 @@
 ]
 
 # Add any paths that contain templates here, relative to this directory.
-templates_path = ['_templates']
+templates_path = ["_templates"]
 
 # List of patterns, relative to source directory, that match files and
 # directories to ignore when looking for source files.
@@ -61,7 +61,7 @@
 # a list of builtin themes.
 #
 html_logo = "_static/images/cig_short_pylith.png"
-html_theme = 'pydata_sphinx_theme'
+html_theme = "pydata_sphinx_theme"
 html_context = {
     "default_mode": "light",
     "github_user": "geodynamics",
@@ -94,8 +94,8 @@
 # Add any paths that contain custom static files (such as style sheets) here,
 # relative to this directory. They are copied after the builtin static files,
 # so a file named "default.css" will overwrite the builtin "default.css".
-html_static_path = ['_static']
+html_static_path = ["_static"]
 html_css_files = [
-    'css/custom.css',
+    "css/custom.css",
 ]
 html_last_updated_fmt = ""

docs/intro/preface.md

@@ -17,9 +17,9 @@ The following peer-reviewed paper discusses the development of PyLith:
 
 To cite the software and manual, use:
 
-- Aagaard, B., M. Knepley, C. Williams (2025a), *PyLith v4.2.0.* Davis, CA: Computational Infrastructure of Geodynamics. DOI: 10.5281/zenodo.14635926.
+- Aagaard, B., M. Knepley, C. Williams (2025a), *PyLith v5.0.0.* Davis, CA: Computational Infrastructure of Geodynamics. DOI: 10.5281/zenodo.14635926.
 
-- Aagaard, B., M. Knepley, C. Williams (2025b), *PyLith Manual, Version 4.2.0.* Davis, CA: Computational Infrastructure of Geodynamics. https://pylith.readthedocs.io/en/v4.2.0
+- Aagaard, B., M. Knepley, C. Williams (2025b), *PyLith Manual, Version 5.0.0.* Davis, CA: Computational Infrastructure of Geodynamics. https://pylith.readthedocs.io/en/v5.0.0
 
 ## Publishing Models
 
@@ -41,7 +41,7 @@ Common output files include the solution fields and state variables in `.h5`, `.
 
 The configuration files, parameters of the simulation, and solution field for the models in this study are available at DOI (Authors X, Y, Z) under CC BY-NC-SA 4.0.
 
-PyLith version 4.2.0 (Aagaard et al., 2013; Aagaard et al., 2025a; Aagaard et al., 2025b) used in these models is freely available under the MIT license for download through its software landing page https://geodynamics.org/resources/pylith or Zenodo (10.5281/zenodo.14635926).
+PyLith version 5.0.0 (Aagaard et al., 2013; Aagaard et al., 2025a; Aagaard et al., 2025b) used in these models is freely available under the MIT license for download through its software landing page https://geodynamics.org/resources/pylith or Zenodo (10.5281/zenodo.14635926).
 The project is being actively developed on GitHub and can be accessed via https://github.com/geodynamics/pylith.
 
 ## Support

docs/user/install/index.md

@@ -59,10 +59,10 @@ You should not have a Python virtual environment activated as PyLith uses its ow
 3. Unpack the tarball.
     ```{code-block} bash
       # Linux 64-bit
-      tar -xzf pylith-4.2.0-linux-x86_64.tar.gz
+      tar -xzf pylith-5.0.0-linux-x86_64.tar.gz
 
       # macOS
-      tar -xzf pylith-4.2.0-macOS-10.15-x86_64.tar.gz
+      tar -xzf pylith-5.0.0-macOS-10.15-x86_64.tar.gz
       ```
 4. Set environment variables.
 The provided `setup.sh` script only works if you are using a bash compatible shell.
@@ -76,20 +76,20 @@ If you are using a different shell, you will need to alter how the environment v
 To bypass macOS quarantine restrictions, simply use command line program `curl` to download the tarball from within a terminal rather than using a web browser.
 
 ```{code-block} console
-curl -L -O https://github.com/geodynamics/pylith/releases/download/v4.2.0/pylith-4.2.0-macOS-10.15-x86_64.tar.gz
+curl -L -O https://github.com/geodynamics/pylith/releases/download/v5.0.0/pylith-5.0.0-macOS-10.15-x86_64.tar.gz
 ```
 
 Alternatively, if you do download the tarball using a web browser, after you unpack the tarball you can remove the macOS quarantine flags using the following commands (requires Administrator access):
 
 ```{code-block} bash
 # Show extended attributes
-xattr ./pylith-4.2.0-macOS-10.15-x86_64
+xattr ./pylith-5.0.0-macOS-10.15-x86_64
 
 # Output should be
 com.apple.quarantine
 
 # Remove quarantine attributes
-sudo xattr -r -d com.apple.quarantine ./pylith-4.2.0-macOS-10.15-x86_64
+sudo xattr -r -d com.apple.quarantine ./pylith-5.0.0-macOS-10.15-x86_64
 ```
 :::
 
@@ -185,7 +185,7 @@ For each package this utility downloads the source code, configures it, builds i
 ## Verifying PyLith Installation
 
 The easiest way to verify that PyLith has been installed correctly is to run one or more of the examples supplied with the binary and source code.
-In the binary distribution, the examples are located in `src/pylith-4.2.0/examples` while in the source distribution, they are located in `pylith-4.2.0/examples`.
+In the binary distribution, the examples are located in `src/pylith-5.0.0/examples` while in the source distribution, they are located in `pylith-5.0.0/examples`.
 {ref}`sec-examples` discusses how to run and visualize the results for the examples.
 To run the example discussed in Section {ref}`sec-examples-box-2d`:
 

pylith/__init__.py

@@ -5,24 +5,25 @@
 # Copyright (c) 2010-2025, University of California, Davis and the PyLith Development Team.
 # All rights reserved.
 #
-# See https://mit-license.org/ and LICENSE.md and for license information. 
+# See https://mit-license.org/ and LICENSE.md and for license information.
 # =================================================================================================
 
-__version__ = "4.2.0"
+__version__ = "5.0.0dev"
 
-__all__ = ['apps',
-           'bc',
-           'faults',
-           'feassemble',
-           'materials',
-           'meshio',
-           'mpi',
-           'problems',
-           'testing',
-           'topology',
-           'utils',
-           'viz',
-           ]
+__all__ = [
+    "apps",
+    "bc",
+    "faults",
+    "feassemble",
+    "materials",
+    "meshio",
+    "mpi",
+    "problems",
+    "testing",
+    "topology",
+    "utils",
+    "viz",
+]
 
 
 # End of file

setup.cfg

@@ -4,7 +4,7 @@ tag_date = 0
 
 [metadata]
 name = pylith
-version = 4.2.0
+version = 5.0.0dev
 author = Brad Aagaard, Matthew Knepley, Charles Williams
 author_email = [email protected], [email protected], [email protected]
 description = Finite-element software for modeling crustal deformation with an emphasis on earthquake faulting.