Update URL (#152)

AMReX-Fluids · Nov 3, 2023 · 88aae44 · 88aae44
1 parent 0eceebc
commit 88aae44
Show file tree

Hide file tree

Showing 20 changed files with 38 additions and 41 deletions.
diff --git a/.github/workflows/cuda.yml b/.github/workflows/cuda.yml
@@ -13,7 +13,7 @@ concurrency:
 
 jobs:
  cuda_eb_2d:
- if: ${{ github.repository == 'AMReX-Codes/IAMR' || github.event_name != 'schedule' }}
+ if: ${{ github.repository == 'AMReX-Fluids/IAMR' || github.event_name != 'schedule' }}
  name: CUDA EB 2D
  runs-on: ubuntu-20.04
  steps:
@@ -24,7 +24,7 @@ jobs:
  - name: Checkout AMReX-Hydro
  uses: actions/checkout@v3
  with:
- repository: AMReX-Codes/AMReX-Hydro
+ repository: AMReX-Fluids/AMReX-Hydro
  path: AMReX-Hydro
  - name: Checkout AMReX
  uses: actions/checkout@v3
@@ -62,7 +62,7 @@ jobs:
  du -hs ~/.cache/ccache
 
  cuda_no_eb_2d:
- if: ${{ github.repository == 'AMReX-Codes/IAMR' || github.event_name != 'schedule' }}
+ if: ${{ github.repository == 'AMReX-Fluids/IAMR' || github.event_name != 'schedule' }}
  name: CUDA NO EB 2D
  runs-on: ubuntu-20.04
  steps:
@@ -73,7 +73,7 @@ jobs:
  - name: Checkout AMReX-Hydro
  uses: actions/checkout@v3
  with:
- repository: AMReX-Codes/AMReX-Hydro
+ repository: AMReX-Fluids/AMReX-Hydro
  path: AMReX-Hydro
  - name: Checkout AMReX
  uses: actions/checkout@v3

diff --git a/.github/workflows/docs.yml b/.github/workflows/docs.yml
@@ -26,7 +26,7 @@ jobs:
  make html
 
  - name: Deploy
- if: github.event_name == 'push' && github.repository == 'AMReX-Codes/IAMR' && github.ref == 'refs/heads/development'
+ if: github.event_name == 'push' && github.repository == 'AMReX-Fluids/IAMR' && github.ref == 'refs/heads/development'
  uses: JamesIves/[email protected]
  with:
  GITHUB_TOKEN: ${{ secrets.GITHUB_TOKEN }}

diff --git a/.github/workflows/gcc.yml b/.github/workflows/gcc.yml
@@ -13,7 +13,7 @@ concurrency:
 
 jobs:
  gcc_eb_3d:
- if: ${{ github.repository == 'AMReX-Codes/IAMR' || github.event_name != 'schedule' }}
+ if: ${{ github.repository == 'AMReX-Fluids/IAMR' || github.event_name != 'schedule' }}
  name: GCC EB 3D
  runs-on: ubuntu-latest
  steps:
@@ -24,7 +24,7 @@ jobs:
  - name: Checkout AMReX-Hydro
  uses: actions/checkout@v3
  with:
- repository: AMReX-Codes/AMReX-Hydro
+ repository: AMReX-Fluids/AMReX-Hydro
  path: AMReX-Hydro
  - name: Checkout AMReX
  uses: actions/checkout@v3
@@ -72,7 +72,7 @@ jobs:
  mpiexec -n 2 ./amr3d.gnu.MPI.ex regtest.3d.flow_past_cylinder-z max_step=3 ns.v=1 mac_proj.verbose=1 nodal_proj.verbose=1
 
  gcc_no_eb_3d:
- if: ${{ github.repository == 'AMReX-Codes/IAMR' || github.event_name != 'schedule' }}
+ if: ${{ github.repository == 'AMReX-Fluids/IAMR' || github.event_name != 'schedule' }}
  name: GCC NO EB 3D
  runs-on: ubuntu-latest
  steps:
@@ -83,7 +83,7 @@ jobs:
  - name: Checkout AMReX-Hydro
  uses: actions/checkout@v3
  with:
- repository: AMReX-Codes/AMReX-Hydro
+ repository: AMReX-Fluids/AMReX-Hydro
  path: AMReX-Hydro
  - name: Checkout AMReX
  uses: actions/checkout@v3
@@ -131,7 +131,7 @@ jobs:
  mpiexec -n 2 ./amr3d.gnu.MPI.ex regtest.3d.euler max_step=3 ns.v=1 mac_proj.verbose=1 nodal_proj.verbose=1
 
  gcc_eb_2d:
- if: ${{ github.repository == 'AMReX-Codes/IAMR' || github.event_name != 'schedule' }}
+ if: ${{ github.repository == 'AMReX-Fluids/IAMR' || github.event_name != 'schedule' }}
  name: GCC EB 2D
  runs-on: ubuntu-latest
  steps:
@@ -142,7 +142,7 @@ jobs:
  - name: Checkout AMReX-Hydro
  uses: actions/checkout@v3
  with:
- repository: AMReX-Codes/AMReX-Hydro
+ repository: AMReX-Fluids/AMReX-Hydro
  path: AMReX-Hydro
  - name: Checkout AMReX
  uses: actions/checkout@v3
@@ -191,7 +191,7 @@ jobs:
  ./amr2d.gnu.OMP.ex regtest.2d.flow_past_cylinder-x max_step=10 ns.v=1 mac_proj.verbose=1 nodal_proj.verbose=1
 
  gcc_no_eb_2d:
- if: ${{ github.repository == 'AMReX-Codes/IAMR' || github.event_name != 'schedule' }}
+ if: ${{ github.repository == 'AMReX-Fluids/IAMR' || github.event_name != 'schedule' }}
  name: GCC NO EB 2D
  runs-on: ubuntu-latest
  steps:
@@ -202,7 +202,7 @@ jobs:
  - name: Checkout AMReX-Hydro
  uses: actions/checkout@v3
  with:
- repository: AMReX-Codes/AMReX-Hydro
+ repository: AMReX-Fluids/AMReX-Hydro
  path: AMReX-Hydro
  - name: Checkout AMReX
  uses: actions/checkout@v3

diff --git a/.github/workflows/hip.yml b/.github/workflows/hip.yml
@@ -13,7 +13,7 @@ concurrency:
 
 jobs:
  hip_eb_3d:
- if: ${{ github.repository == 'AMReX-Codes/IAMR' || github.event_name != 'schedule' }}
+ if: ${{ github.repository == 'AMReX-Fluids/IAMR' || github.event_name != 'schedule' }}
  name: HIP EB 3D
  runs-on: ubuntu-20.04
  steps:
@@ -24,7 +24,7 @@ jobs:
  - name: Checkout AMReX-Hydro
  uses: actions/checkout@v3
  with:
- repository: AMReX-Codes/AMReX-Hydro
+ repository: AMReX-Fluids/AMReX-Hydro
  path: AMReX-Hydro
  - name: Checkout AMReX
  uses: actions/checkout@v3

diff --git a/.github/workflows/sycl.yml b/.github/workflows/sycl.yml
@@ -13,7 +13,7 @@ concurrency:
 
 jobs:
  sycl_no_eb_3d:
- if: ${{ github.repository == 'AMReX-Codes/IAMR' || github.event_name != 'schedule' }}
+ if: ${{ github.repository == 'AMReX-Fluids/IAMR' || github.event_name != 'schedule' }}
  name: SYCL NO EB 3D
  runs-on: ubuntu-latest
  steps:
@@ -24,7 +24,7 @@ jobs:
  - name: Checkout AMReX-Hydro
  uses: actions/checkout@v3
  with:
- repository: AMReX-Codes/AMReX-Hydro
+ repository: AMReX-Fluids/AMReX-Hydro
  path: AMReX-Hydro
  - name: Checkout AMReX
  uses: actions/checkout@v3

diff --git a/CONTRIBUTING.md b/CONTRIBUTING.md
@@ -51,14 +51,14 @@ your fork.
 `development` on the main IAMR repository.
 
 First, let us setup your local git repo. To make your own fork of the main
-repository, press the fork button on the [IAMR Github page](https://github.com/AMReX-Codes/IAMR).
+repository, press the fork button on the [IAMR Github page](https://github.com/AMReX-Fluids/IAMR).
 
 Then, clone IAMR on your local computer. If you plan on doing a lot of IAMR development,
 we recommend configuring your clone to use ssh access so you won't have to enter your Github
 password every time, which you can do using these commands:
 
 ```
-git clone [email protected]:AMReX-Codes/IAMR.git
+git clone [email protected]:AMReX-Fluids/IAMR.git
 cd IAMR
 
 # Add your own fork.
@@ -78,7 +78,7 @@ machine, see
 If you instead prefer to use HTTPS authentication, configure your local clone as follows:
 
 ```
-git clone https://github.com/AMReX-Codes/IAMR.git
+git clone https://github.com/AMReX-Fluids/IAMR.git
 cd IAMR
 
 # Add your own fork.

diff --git a/Docs/README.md b/Docs/README.md
@@ -1 +1 @@
-Online documentation is available at https://amrex-codes.github.io/iamr/docs_html/.
+Online documentation is available at https://amrex-fluids.github.io/iamr/docs_html/.
diff --git a/Docs/sphinx_documentation/source/Debugging.rst b/Docs/sphinx_documentation/source/Debugging.rst
@@ -56,7 +56,7 @@ for more information and tips.
 
 
 If you believe you've encountered a bug or incorrect behavior in IAMR, please report the issue
-on IAMR's github page `here <https://github.com/AMReX-Codes/IAMR/issues>`_ .
+on IAMR's github page `here <https://github.com/AMReX-Fluids/IAMR/issues>`_ .
 
 ..
  If the issues is ``MLMG failed to converge``
diff --git a/Docs/sphinx_documentation/source/FluidEquations.rst b/Docs/sphinx_documentation/source/FluidEquations.rst
@@ -68,4 +68,4 @@ IAMR also has the option to solve for temperature, along with a modified diverge
 Here, the divergence constraint captures compressibily effects due to thermal diffusion.
 To enable the temperature solve, use ``ns.do_temp = 1`` and set ``ns.temp_cond_coef`` to represent :math:`\lambda / c_p`,
 which is taken to be constant. More sophiticated treatments are possible; if interested, please open an issue on github:
-https://github.com/AMReX-Codes/IAMR/issues
+https://github.com/AMReX-Fluids/IAMR/issues
diff --git a/Docs/sphinx_documentation/source/Getting_Started.rst b/Docs/sphinx_documentation/source/Getting_Started.rst
@@ -29,15 +29,15 @@ First, make sure that git is installed on your machine.
 
  .. code:: shell
 
- git clone https://github.com/AMReX-Codes/AMReX-Hydro.git
+ git clone https://github.com/AMReX-Fluids/AMReX-Hydro.git
 
  This will create a folder called ``AMReX-Hydro/`` on your machine.
 
 #. Download the IAMR repository by typing:
 
  .. code:: shell
 
- git clone https://github.com/AMReX-Codes/IAMR.git
+ git clone https://github.com/AMReX-Fluids/IAMR.git
 
  This will create a folder called ``IAMR/`` on your machine.
 
@@ -229,4 +229,3 @@ for visualization, please see the :ref:`Visualization` Section.
  looking at and/or select a region and click “Dataset” (under View)
  in order to look at the actual numbers. You can also export the
  pictures in several different formats under “File/Export”.
-
diff --git a/Docs/sphinx_documentation/source/Introduction_Chapter.rst b/Docs/sphinx_documentation/source/Introduction_Chapter.rst
@@ -9,7 +9,7 @@ It is built on top of AMReX, a publicly available software framework designed fo
 massively parallel block-structured adaptive mesh refinement (AMR)
 applications.
 
-Another AMReX-based code, `incflo <https://amrex-codes.github.io/incflo/>`_, also solves the variable-density incompressible
+Another AMReX-based code, `incflo <https://amrex-fluids.github.io/incflo/>`_, also solves the variable-density incompressible
 Navier-Stokes equations in 2-D or 3-D but does not support subcycling in time.
 
 Key software and algorithmic features of IAMR include:
@@ -34,12 +34,12 @@ Key software and algorithmic features of IAMR include:
 
 * Support for particles.
 
-The IAMR source code can be found at https://github.com/AMReX-Codes/IAMR/.
+The IAMR source code can be found at https://github.com/AMReX-Fluids/IAMR/.
 IAMR heavily leverages AMReX (see https://amrex-codes.github.io/) which is supported by
 ECP as part of the AMReX Co-Design Center.
 
 Active development in IAMR is ongoing in the development branch.
 Changes are merged into the main branch at the beginning of each month.
 
 If you find this documentation doesn't answer your questions or contains errors,
-please open an issue on github: https://github.com/AMReX-Codes/IAMR/issues .
+please open an issue on github: https://github.com/AMReX-Fluids/IAMR/issues .
diff --git a/Docs/sphinx_documentation/source/ProblemSetup.rst b/Docs/sphinx_documentation/source/ProblemSetup.rst
@@ -354,7 +354,7 @@ Physics Parameters
 
 IAMR provides support for gravity, viscosity, and diffusivity. Default treatment is given in the table below.
 More sophiticated treatments are possible;
-if interested, please open an issue on github: https://github.com/AMReX-Codes/IAMR/issues
+if interested, please open an issue on github: https://github.com/AMReX-Fluids/IAMR/issues
 
 The following inputs must be preceded by "ns." For information on units, see :ref:`sec:units`.
 
@@ -367,4 +367,3 @@ The following inputs must be preceded by "ns." For information on units, see :re
 +----------------------+-------------------------------------------------------------------------+----------+-----------+
 | scal_diff_coefs | Diffusivity of tracer(s). Must specify one value for each tracer. | Real | None |
 +----------------------+-------------------------------------------------------------------------+----------+-----------+
-
diff --git a/Docs/sphinx_documentation/source/TimeStep.rst b/Docs/sphinx_documentation/source/TimeStep.rst
@@ -1,6 +1,6 @@
 .. include:: CustomCommands.rst
 
-To learn how the convective terms are constructed, see `AMReX-Hydro <https://amrex-codes.github.io/amrex/hydro_html>`_
+To learn how the convective terms are constructed, see `AMReX-Hydro <https://amrex-fluids.github.io/amrex-hydro/docs_html>`_
 
 Time Step -- MOL
 ~~~~~~~~~~~~~~~~
@@ -131,4 +131,3 @@ Addition details are located in the :ref:`BDS section of the AMReX-Hydro docs <h
  A. Nonaka, S. May, A. S. Almgren, and J. B. Bell,
  SIAM Journal of Scientific Computation, Vol. 33, No.4, pp. 2039-2062.
  https://ccse.lbl.gov/Publications/nonaka/BDS_3d.pdf :cite:`BDS_3d`
-
diff --git a/Docs/sphinx_documentation/source/conf.py b/Docs/sphinx_documentation/source/conf.py
@@ -57,7 +57,7 @@ def get_IAMR_version():
 # }
 intersphinx_mapping = {
  'amrex': ('https://amrex-codes.github.io/amrex/docs_html/', None),
- 'hydro': ('https://amrex-codes.github.io/amrex-hydro/docs_html/', None)
+ 'hydro': ('https://amrex-fluids.github.io/amrex-hydro/docs_html/', None)
 }
 
 # Add any paths that contain templates here, relative to this directory.

diff --git a/Docs/sphinx_documentation/source/index.rst b/Docs/sphinx_documentation/source/index.rst
@@ -16,10 +16,10 @@ building massively parallel block-structured adaptive mesh refinement (AMR)
 applications.
 
 The IAMR source code is available at
-https://amrex-codes.github.io/IAMR/
+https://amrex-fluids.github.io/IAMR/
 
 For an AMReX-based incompressible flow code without subcycling in time,
-see incflo (https://amrex-codes.github.io/incflo/)
+see incflo (https://amrex-fluids.github.io/incflo/)
 
 .. note::
  **This documentation is a work in progress. Please check back later for more content.**

diff --git a/Exec/README.md b/Exec/README.md
@@ -14,5 +14,5 @@ The subdirectories group together tests:
  using an EB is possible
 
 For further help, please see IAMR's documentation at
-https://amrex-codes.github.io/IAMR/
+https://amrex-fluids.github.io/IAMR/
 
diff --git a/README.md b/README.md
@@ -3,4 +3,4 @@
 A parallel, adaptive mesh refinement (AMR) code that solves the variable-density 
 incompressible Navier-Stokes equations.
 
-Please see documentation at https://amrex-codes.github.io/IAMR/
+Please see documentation at https://amrex-fluids.github.io/IAMR/
diff --git a/Test/README.md b/Test/README.md
@@ -44,7 +44,7 @@ you. We assume REGTEST_SCRATCH is defined to point to this location.
  ```
  git clone https://github.com/AMReX-Codes/amrex.git ${REGTEST_SCRATCH}/amrex
  git clone https://github.com/AMReX-Codes/regression_testing.git ${REGTEST_SCRATCH}/regression_testing
- git clone https://github.com/AMReX-Codes/IAMR.git ${REGTEST_SCRATCH}/IAMR
+ git clone https://github.com/AMReX-Fluids/IAMR.git ${REGTEST_SCRATCH}/IAMR
  ```
 
 3. Move to the location where the tests will be built/run, create

diff --git a/Tutorials/HIT/README b/Tutorials/HIT/README
@@ -4,4 +4,4 @@ The initial conditions are relatively quickly washed away due to the action of t
 An AMReX tool for deriving the spectrum from a plotfile can be found here:
 AmrDeriveSpectrum (https://github.com/AMReX-Astro/AmrDeriveSpectrum)
 
-For questions or help, please visit IAMR's documentation (https://amrex-codes.github.io/IAMR/docs_html/index.html) or post an issue on IAMR's github page (https://github.com/AMReX-Codes/IAMR).
+For questions or help, please visit IAMR's documentation (https://amrex-fluids.github.io/IAMR/docs_html/index.html) or post an issue on IAMR's github page (https://github.com/AMReX-Fluids/IAMR).
diff --git a/Tutorials/README.md b/Tutorials/README.md
@@ -1,6 +1,6 @@
 These tutorials provide problem setups to help familiarize you with running
 IAMR. Below we provide a quick overview. For more information,
-please see IAMR's documentation at https://amrex-codes.github.io/IAMR/
+please see IAMR's documentation at https://amrex-fluids.github.io/IAMR/
 or open an issue on github.
 
 There are a large number of options which can be specified from the inputs,