Merge branch 'development' into update_xrb_spherical

Author: zhichen3

.codespell-ignore-words

@@ -12,4 +12,5 @@ nd
 ue
 bion
 aas
-checkin
+checkin
+indx

.github/workflows/gpu_action.yml

@@ -8,7 +8,7 @@ concurrency:
 
 jobs:
   gpu-compilation:
-    runs-on: ubuntu-latest
+    runs-on: ubuntu-22.04
     steps:
       - uses: actions/checkout@v4
         with:

CHANGES.md

@@ -1,3 +1,23 @@
+# 25.01
+
+  * address rotation source in spherical 2d coordinate (#2967)
+
+  * update scripts and input files for diffusion test  (#3012)
+
+  * update pressure via eos when transverse_use_eos=1 (#3004)
+
+  * update thermal diffusion documentation (#3011)
+
+  * rename `Opacity_dir` -> `OPACITY_DIR` (#3006)
+
+  * sync GPU CI dependencies with AMReX (#3010)
+
+  * wdmerger: update inputs for He mergers to include burn retry
+    and adjust I/O (#3008)
+
+  * fix area/vol factors for spherical when theta is close to 0 or pi
+    (#3007)
+
 # 24.12
 
   * update clang-tidy CI (#2992, #3002)
@@ -908,7 +928,7 @@
      the conversion of primitive to conserved variables (#804)
 
    * We've changed how the backup for retries is done.  Presently if
-     use_retry is enabled we make a pre-emptive copy of the StateData
+     use_retry is enabled we make a preemptive copy of the StateData
      right at the beginning of the timestep.  Now we only backup when
      we detect that a retry is needed (#812)
 

Exec/gravity_tests/DustCollapse/GNUmakefile

@@ -22,7 +22,7 @@ CASTRO_HOME  ?= ../../..
 # This sets the EOS directory in $(MICROPHYSICS_HOME)/EOS
 EOS_DIR     := gamma_law
 
-# This sets the network directory in $(MICROPHYSICS_HOME)/Networks
+# This sets the network directory in $(MICROPHYSICS_HOME)/networks
 NETWORK_DIR := general_null
 NETWORK_INPUTS = ignition.net
 

Exec/gravity_tests/StarGrav/GNUmakefile

@@ -16,7 +16,7 @@ USE_REACT  = FALSE
 
 USE_MODEL_PARSER = TRUE
 
-# This sets the EOS directory in $(MICROPHYSICS_HOME)/eos
+# This sets the EOS directory in $(MICROPHYSICS_HOME)/EOS
 EOS_DIR     := helmholtz
 
 # This sets the network directory in $(MICROPHYSICS_HOME)/networks

Exec/gravity_tests/evrard_collapse/GNUmakefile

@@ -18,10 +18,10 @@ USE_OMP    = FALSE
 USE_GRAV   = TRUE
 
 
-# This sets the EOS directory in $(MICROPHYSICS_HOME)/eos
+# This sets the EOS directory in $(MICROPHYSICS_HOME)/EOS
 EOS_DIR     := gamma_law
 
-# This sets the network directory in $(MICROPHYSICS_HOME)/Networks
+# This sets the network directory in $(MICROPHYSICS_HOME)/networks
 NETWORK_DIR := general_null
 NETWORK_INPUTS = gammalaw.net
 

Exec/gravity_tests/hse_convergence/GNUmakefile

@@ -15,7 +15,7 @@ USE_MAESTRO_INIT = FALSE
 
 CASTRO_HOME ?= ../../..
 
-# This sets the EOS directory in $(MICROPHYSICS_HOME)/eos
+# This sets the EOS directory in $(MICROPHYSICS_HOME)/EOS
 EOS_DIR     := helmholtz
 
 # This sets the network directory in $(MICROPHYSICS_HOME)/networks

Exec/gravity_tests/hse_convergence_general/GNUmakefile

@@ -20,7 +20,7 @@ USE_MODEL_PARSER = TRUE
 # define the location of the CASTRO top directory
 CASTRO_HOME  ?= ../../..
 
-# This sets the EOS directory in $(MICROPHYSICS_HOME)/eos
+# This sets the EOS directory in $(MICROPHYSICS_HOME)/EOS
 EOS_DIR     := helmholtz
 
 # This sets the network directory in $(MICROPHYSICS_HOME)/networks

Exec/gravity_tests/hydrostatic_adjust/GNUmakefile

@@ -15,7 +15,7 @@ USE_MODEL_PARSER = TRUE
 
 CASTRO_HOME ?= ../../..
 
-# This sets the EOS directory in $(MICROPHYSICS_HOME)/eos
+# This sets the EOS directory in $(MICROPHYSICS_HOME)/EOS
 EOS_DIR     := helmholtz
 
 # This sets the network directory in $(MICROPHYSICS_HOME)/networks

Exec/gravity_tests/uniform_cube/GNUmakefile

@@ -20,7 +20,7 @@ USE_GRAV    ?= TRUE
 # This sets the EOS directory in $(MICROPHYSICS_HOME)/EOS
 EOS_DIR     := gamma_law
 
-# This sets the network directory in $(MICROPHSICS_HOME)/Networks
+# This sets the network directory in $(MICROPHSICS_HOME)/networks
 NETWORK_DIR ?= general_null
 NETWORK_INPUTS = gammalaw.net