From f6627dba670a03bdc8774347194d15ddf1aa42de Mon Sep 17 00:00:00 2001
From: ChunYen-Chen <chunyenchen2019@gmail.com>
Date: Thu, 16 Jan 2025 11:23:20 +0000
Subject: [PATCH] [Workflow] Update test problem wiki pages

---
 .../Test-Problems:-AGORA_IsolatedGalaxy.md    | 38 +++++++++++++++----
 .../Test-Problems:-DiskHeating.md             |  8 ++--
 2 files changed, 36 insertions(+), 10 deletions(-)

diff --git a/doc/wiki/Test-Problem-related/Test-Problems:-AGORA_IsolatedGalaxy.md b/doc/wiki/Test-Problem-related/Test-Problems:-AGORA_IsolatedGalaxy.md
index 3a05914d9..77037155d 100644
--- a/doc/wiki/Test-Problem-related/Test-Problems:-AGORA_IsolatedGalaxy.md
+++ b/doc/wiki/Test-Problem-related/Test-Problems:-AGORA_IsolatedGalaxy.md
@@ -19,8 +19,9 @@
    - [[Miscellaneous Options | Installation:-Option-List#miscellaneous-options]]
 
 
-# Default setup
+# Simulation setup
 1. Units
+
    1. External (for `Input__TestProb` only)
 
       See the comment of each runtime variable
@@ -28,9 +29,27 @@
    2. Internal (for all other input files and internal usage)
       | [L] | [M]        | [T] | [V] = [L]/[T] | [D] = [M]/[D]^3  |
       |---  |---         |---  |---            |---               |
-      | kpc | 1.0e8 Msun | Myr | ~ 9.8e2 km/s  | ~ 6.8e-23 g/cm^3 |
+      | kpc | 1.0e9 Msun | Myr | ~ 9.8e2 km/s  | ~ 6.8e-23 g/cm^3 |
+
+2.  Low-resolution default setup
+
+   1. Download the low-resolution initial conditions and `Input_*` by executing
+      ```bash
+      sh download_ic_low_res.sh
+      ```
+
+   2. Default resolution ~ 80 pc (root grid 128^3; [[MAX_LEVEL | Runtime-Parameters:-Refinement#MAX_LEVEL]] = 7)
+
+3.  High-resolution setup
 
-2. Default resolution ~ 80 pc ([[MAX_LEVEL | Runtime-Parameters:-Refinement#MAX_LEVEL]] = 7)
+   1. Download the high-resolution initial conditions and `Input_*` by executing
+      ```bash
+      sh download_ic_high_res.sh
+      ```
+
+   2. Highest resolution ~ 20 pc (root grid 128^3; [[MAX_LEVEL | Runtime-Parameters:-Refinement#MAX_LEVEL]] = 9)
+
+   3. This setup reproduces the AGORA high-resolution run presented in the GAMER-2 paper (Schive et al. 2018)
 
 
 # Note
@@ -40,11 +59,16 @@
    [Ji-hoon Kim, et al., 2016, ApJ, 833, 202](https://dx.doi.org/10.3847/1538-4357/833/2/202) [(arXiv: 1610.03066)](https://dx.doi.org/10.3847/1538-4357/833/2/202)
 2. Other references
    - [AGORA website](https://sites.google.com/site/santacruzcomparisonproject/)
-   - [AGORA initial condition](https://goo.gl/8JzbIJ)
+   - [AGORA initial conditions](https://goo.gl/8JzbIJ)
    - [Enzo setup](https://bitbucket.org/enzo/enzo-dev/src/19f4a44e06f1c386573dc77b3608ba66b64d93bc/run/Hydro/Hydro-3D/AgoraGalaxy/?at=week-of-code)
    - [Goldbaum et al. 2016](https://arxiv.org/abs/1605.00646)
    - [yt hub](https://girder.hub.yt/#collection/5736481ddd9119000164acf1)
-3. Run the script `download_ic.sh` to download the low-resolution initial condition files for this test
-> [!NOTE]
-> It's the same script used in the "AgoraGalaxy" test problem of Enzo.
+   - [CloudyData_UVB table](https://github.com/grackle-project/grackle_data_files/tree/main/input)
+3. The low-resolution initial condition files from `sh download_ic_low_res.sh` are the same initial conditions used
+   in the `AgoraGalaxy` test problem of Enzo
 4. Some handy yt analysis scripts are put at `yt_script`
+
+
+# First-time GRACKLE installation guide (on NTU clusters as an example)
+
+Please refer to the README file at `./example/grackle/`
diff --git a/doc/wiki/Test-Problem-related/Test-Problems:-DiskHeating.md b/doc/wiki/Test-Problem-related/Test-Problems:-DiskHeating.md
index 718197c79..bad3ba745 100644
--- a/doc/wiki/Test-Problem-related/Test-Problems:-DiskHeating.md
+++ b/doc/wiki/Test-Problem-related/Test-Problems:-DiskHeating.md
@@ -19,6 +19,8 @@
 - Available options
    - [[Miscellaneous Options | Installation:-Option-List#miscellaneous-options]]
 
+> [!NOTE]
+> DiskHeatingParticleIC uses the floating-point type for particle type and assumes single precision
 
 # Quick start
 0. Generate `gamer`
@@ -44,9 +46,9 @@
 
 4. Switch to the high-resolution run
 
-   1. Link high-resolution `PAR_IC`
+   1. Link high-resolution `DiskHeatingParticleIC`
       ```bash
-      ln -sf ic_files/PAR_IC_0.4_M7 PAR_IC
+      ln -sf ic_files/PAR_IC_0.4_M7 DiskHeatingParticleIC
       ```
    2. Set [[PAR_NPAR | Particles#PAR_NPAR]]=80000000, [[MAX_LEVEL | Runtime-Parameters:-Refinement#MAX_LEVEL]]=3, and change all values in `Input__Flag_NParPatch` to `800`
 
@@ -61,7 +63,7 @@
 
    c. Set center to be the location of the soliton in `get_par_ic.py`
 
-   d. Execute `get_par_ic.py`, it will generate `PAR_IC`
+   d. Execute `get_par_ic.py`, it will generate `DiskHeatingParticleIC`
 
 2. Halo