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0e0b994
write mean optical depth and dudt to full dump files
alisonkyoung1 Feb 12, 2025
44fb9a5
added t_cool calculation to analysis_disc_stresses and changed du_sto…
alisonkyoung1 Feb 24, 2025
0c4732d
Updated eos_stamatellos variables to readdump routine to be consisten…
alisonkyoung1 Mar 20, 2025
16402ad
Bugfix
alisonkyoung1 Mar 20, 2025
6994a62
bugfixes for allocating cooling=9 arrays
alisonkyoung1 Mar 20, 2025
5260553
Added dust-gas gravity to icooling=9 od_method=1
May 12, 2025
f379336
Allow FLD for dust runs
May 13, 2025
fb5ebd6
Pulled updates from upstream. Passes test suite
alisonkyoung1 Jun 26, 2025
31c52c7
restore od_method to updates branch
alisonkyoung1 Jul 2, 2025
aa8b190
Implements binary search in opacity table interpolation for eos_stama…
alisonkyoung1 Jul 14, 2025
877b76d
eos.f90 to be consistent with eos_stamatellos.f90
alisonkyoung1 Jul 14, 2025
57cabe9
Edits to utils/analysis_disc_stresses.f90 to add H limit to tcool sum…
alisonkyoung1 Jul 15, 2025
76352ab
Added option to specify ieos for analysis (to make it use the correct…
alisonkyoung1 Jul 15, 2025
48d2dd4
Correct subroutine names to fix compiler issues
alisonkyoung1 Jul 15, 2025
f8b502a
Corrected and added estimate of alpha_art in analysis_disc_stresses.f90
alisonkyoung1 Jul 17, 2025
3075838
Fix eos_stamatellos subroutine name in disc setup
alisonkyoung1 Jul 17, 2025
fde022e
Merge branch 'master' of https://github.com/alisonkyoung1/phantom
alisonkyoung1 Jul 17, 2025
f409fee
merge upstream
alisonkyoung1 Jul 22, 2025
9f90146
upstream merge
alisonkyoung1 Jul 22, 2025
a3bcfad
Restore comments on icooling=9 subroutines
alisonkyoung1 Jul 22, 2025
2f2196b
Fixes from merge
alisonkyoung1 Aug 1, 2025
790e301
[format-bot] obsolete .gt. .lt. .ge. .le. .eq. .ne. replaced
alisonkyoung1 Aug 1, 2025
093aa5b
[format-bot] F77-style SHOUTING removed
alisonkyoung1 Aug 1, 2025
59918b4
[header-bot] updated file headers
alisonkyoung1 Aug 1, 2025
15e4523
[space-bot] whitespace at end of lines removed
alisonkyoung1 Aug 1, 2025
3c47408
[author-bot] updated AUTHORS file
alisonkyoung1 Aug 1, 2025
613d8d0
[format-bot] end if -> endif; end do -> enddo; if( -> if (
alisonkyoung1 Aug 1, 2025
231c47b
Merge branch 'updates'
alisonkyoung1 Aug 1, 2025
1237519
remove setup=sphere
alisonkyoung1 Aug 6, 2025
e00ea99
Fix bug that made buildbot SETUP=test fail
alisonkyoung1 Aug 6, 2025
5cf9c58
Fix openmp bug and units bug in analysis_disc_stresses.f90
alisonkyoung1 Aug 27, 2025
99a2ba1
Removed unused variable from analysis_disc_stresses.f90
alisonkyoung1 Aug 28, 2025
c8caddf
Fixes for running phantomanalysis on multiple files with analysis_dis…
alisonkyoung1 Sep 1, 2025
ffe38a5
Improvements to sgdisc setup for lumdisc option
alisonkyoung1 Sep 26, 2025
6a68103
Fix issue that was causing compiler issues
alisonkyoung1 Sep 26, 2025
b5f5391
Making lumdisc parameters optional arguments in set_disc
alisonkyoung1 Sep 26, 2025
320b61b
Replaced call fatals with warnings in eos_stamatellos.f90 for when de…
alisonkyoung1 Dec 15, 2025
b551d48
Add calculation of mid-plane optical depth to analysis_disc_stresses.f90
alisonkyoung1 Dec 15, 2025
db77b55
Fix use of lumdisc in discs without ieos=24
alisonkyoung1 Dec 15, 2025
6c693b0
bug fix for lumdisc setup
alisonkyoung1 Dec 15, 2025
c58785b
Beginning of test for icooling=9
alisonkyoung1 Dec 15, 2025
a6dda77
Data file for Masunaga+(2000) spherical cloud collapse test
alisonkyoung1 Dec 16, 2025
389b883
Additions for test for icooling=9
alisonkyoung1 Dec 16, 2025
dffef9b
First version of test_coolra.f90
alisonkyoung1 Dec 16, 2025
f5dcd6d
test for Stamatellos/Lombardi opacity table interpolation added
alisonkyoung1 Dec 19, 2025
8b19672
setup files for coolingra workflow
alisonkyoung1 Jan 5, 2026
99cb488
coolingra workflow created
alisonkyoung1 Jan 5, 2026
6acdc7b
bugfix
alisonkyoung1 Jan 5, 2026
df571ce
coolingra.yml bugfix
alisonkyoung1 Jan 5, 2026
e8311c8
coolingra.yml bugfix - tabs changed to spaces
alisonkyoung1 Jan 5, 2026
e53ce97
coolingra.yml added splash
alisonkyoung1 Jan 5, 2026
8da8bf3
coolingra.yml bugfix
alisonkyoung1 Jan 5, 2026
0d8fc6f
coolingra.yml bugfix
alisonkyoung1 Jan 5, 2026
2627bd3
coolingra.yml build Splash from source
alisonkyoung1 Jan 5, 2026
4cd1ebd
coolingra.yml build Splash from source and Giza
alisonkyoung1 Jan 5, 2026
2d99253
coolingra.yml bugfix
alisonkyoung1 Jan 5, 2026
0c34508
coolingra.yml bugfix
alisonkyoung1 Jan 5, 2026
7043b60
coolingra.yml bugfix - disable X11
alisonkyoung1 Jan 5, 2026
52a1b93
coolingra.yml change to use Splash binary
alisonkyoung1 Jan 5, 2026
e95a287
coolingra.yml change to use Splash
alisonkyoung1 Jan 5, 2026
832918e
coolingra.yml change to use Splash
alisonkyoung1 Jan 5, 2026
4433357
coolingra.yml change to use ubuntu
alisonkyoung1 Jan 5, 2026
34d485a
coolingra.yml change to use ubuntu
alisonkyoung1 Jan 5, 2026
d046dc3
coolingra.yml bugfix
alisonkyoung1 Jan 5, 2026
4f3a86e
implements Masunaga collapse check
alisonkyoung1 Jan 6, 2026
e1efc88
bugfix
alisonkyoung1 Jan 6, 2026
1eceefb
testing
alisonkyoung1 Jan 6, 2026
6819c43
testing2
alisonkyoung1 Jan 6, 2026
18ca824
Add fail exit status to check
alisonkyoung1 Jan 6, 2026
47f1e03
bugfix
alisonkyoung1 Jan 6, 2026
21fa5ae
tested version
alisonkyoung1 Jan 6, 2026
154c674
[header-bot] updated file headers
alisonkyoung1 Jan 6, 2026
f188184
[space-bot] whitespace at end of lines removed
alisonkyoung1 Jan 6, 2026
5498ed7
[author-bot] updated AUTHORS file
alisonkyoung1 Jan 6, 2026
733817a
[indent-bot] standardised indentation
alisonkyoung1 Jan 6, 2026
b2a8454
Merge remote-tracking branch 'upstream/master' into akytest_rep
alisonkyoung1 Jan 6, 2026
50371a7
Fix bugs from merge
alisonkyoung1 Jan 6, 2026
14614eb
Fix bugs from merge
alisonkyoung1 Jan 6, 2026
c68f557
edits to pass test suite
alisonkyoung1 Jan 7, 2026
ef657a3
Fix makefile and add linalg files back in
alisonkyoung1 Jan 7, 2026
28698f6
Fix errors in lumdisc setup
alisonkyoung1 Jan 8, 2026
fdc6bde
update for move of variables from timestep.f90
alisonkyoung1 Jan 8, 2026
a6051e0
Added test_eos_stam.f90 - test for interpolation for ieos=24
alisonkyoung1 Jan 9, 2026
2bbcccc
Improved error handling in eos_lom data read
alisonkyoung1 Jan 9, 2026
ea4a4af
Fix bug in test_eos_stam.f90
alisonkyoung1 Jan 9, 2026
4020fcd
Edits to coolingra tests
alisonkyoung1 Jan 13, 2026
14d617b
Changed tolerance in coolingra test
alisonkyoung1 Jan 14, 2026
afe8164
Add some upstream changes
alisonkyoung1 Jan 16, 2026
10bfb03
Merge remote-tracking branch 'upstream/master' into akytest_rep
alisonkyoung1 Jan 16, 2026
45326f3
Implement Gemini suggestions
alisonkyoung1 Jan 16, 2026
8a00fca
Fix bug in writing temperature array for large np
alisonkyoung1 Jan 20, 2026
7038bd6
Fix ipass bug in itest_eos_stam.f90
alisonkyoung1 Jan 20, 2026
1b70c59
Merge upstream changes
alisonkyoung1 Jan 21, 2026
795762e
upstream changes
alisonkyoung1 Jan 21, 2026
05f2b6a
Fix bug in test counting
alisonkyoung1 Jan 22, 2026
f7cfb9f
Bug fixes for testcoolra to pass Github tests: fix uninitialised vari…
alisonkyoung1 Jan 26, 2026
c7d3af9
Skip test_eos_stam if not got_phantom_dir
alisonkyoung1 Jan 26, 2026
83dd358
Fix mismatch in real types in test_eos_stam.f90
alisonkyoung1 Jan 26, 2026
8b16a21
Change where coolingra workflow called
alisonkyoung1 Jan 27, 2026
13b9206
Fixed tabs in yml files
alisonkyoung1 Jan 27, 2026
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86 changes: 86 additions & 0 deletions .github/workflows/coolingra.yml
Original file line number Diff line number Diff line change
@@ -0,0 +1,86 @@
name: coolingra

# Trigger on pull request, but only for these branches
on:
workflow_call:

env:
SYSTEM: gfortran
OMP_STACKSIZE: 512M
OMP_NUM_THREADS: 4
PHANTOM_DIR: ${{ github.workspace }}
SPLASH_DIR: ${{ github.workspace }}/splash

# A workflow run is made up of one or more jobs that can run sequentially or in parallel
jobs:
coolingra:

# The type of runner that the job will run on
runs-on: ubuntu-latest

# Steps represent a sequence of tasks that will be executed as part of the job
steps:
- name: install gfortran compiler
uses: fortran-lang/setup-fortran@v1
with:
compiler: gcc

- name: Check gfortran version
run: gfortran --version

- name: "Clone phantom"
uses: actions/checkout@v4

- name: "Compile phantom"
run: make SETUP=testcoolra phantom

- name: "Compile phantomsetup"
run: make SETUP=testcoolra setup

- name: "Create test directory and copy binaries"
run: |
mkdir -p test_coolra
cp bin/phantom test_coolra/
cp bin/phantomsetup test_coolra/
cp data/cooling/sphere.setup test_coolra/
cp data/cooling/sphere.in test_coolra/
cp data/cooling/Masunaga_2000_collapse.csv test_coolra/
cp data/cooling/check_masunaga_vs_maxvals.f90 test_coolra/
cd test_coolra

- name: "Run phantom test"
run: |
cd test_coolra

# run the test, run phantomsetup 3 times to ensure .setup file is rewritten if necessary
./phantomsetup sphere.setup
./phantomsetup sphere.setup
./phantomsetup sphere.setup
./phantom sphere.in

- name: Install splash with apt-get
run: |
sudo apt-get update
sudo apt-get install -y splash

- name: "Check SPLASH"
run: splash --version

- name: "Run splash maxvals on dump files"
run: |
cd test_coolra
splash calc max sphere_*0 -dev /null

if [ -f maxvals.out ]; then
echo "maxvals.out found"
else
echo "ERROR: maxvals.out not produced"
exit 1
fi

- name: "Compile and run check code"
run: |
cd test_coolra
gfortran -o runcheck.o check_masunaga_vs_maxvals.f90
./runcheck.o

12 changes: 11 additions & 1 deletion .github/workflows/on_pr.yml
Original file line number Diff line number Diff line change
Expand Up @@ -34,12 +34,15 @@ jobs:
krome:
uses: ./.github/workflows/krome.yml

coolingra:
uses: ./.github/workflows/coolingra.yml

summary:

# This name matches the branch protection requirement
name: summary

needs: [build, test, mpi, mcfost, binary, growth, krome]
needs: [build, test, mpi, mcfost, binary, growth, krome, coolingra]
if: success() || failure() && github.event_name == 'pull_request'
runs-on: ubuntu-latest
steps:
Expand Down Expand Up @@ -94,4 +97,11 @@ jobs:
exit 1
fi

if [[ "${{ needs.coolingra.result }}" == "success" ]]; then
echo "Rad cooling approx jobs succeeded"
else
echo "At least one rad cooling approx test failed"
exit 1
fi

echo "All tests succeeded"
3 changes: 3 additions & 0 deletions .github/workflows/on_push.yml
Original file line number Diff line number Diff line change
Expand Up @@ -29,3 +29,6 @@ jobs:

krome:
uses: ./.github/workflows/krome.yml

coolingra:
uses: ./.github/workflows/coolingra.yml
9 changes: 4 additions & 5 deletions build/Makefile
Original file line number Diff line number Diff line change
Expand Up @@ -295,7 +295,6 @@ ifeq ($(INJECT_PARTICLES), yes)
endif

# do double precision flag last (append only to FFLAGS)

ZZFFLAGS := ${FFLAGS}
ifeq ($(DOUBLEPRECISION), yes)
FFLAGS += ${DBLFLAG}
Expand Down Expand Up @@ -665,9 +664,9 @@ SRCSPLITPART=utils_indtimesteps.f90 utils_getneighbours.F90 utils_splitmerge.f90
# 22/4/24: added setup_params to avoid weird build failure with ifort on Mac OS
SRCTESTS=utils_testsuite.f90 test_kernel.f90 \
${SRCAPR} test_apr.f90 test_dust.f90 test_growth.f90 test_smol.F90 \
test_nonidealmhd.f90 directsum.f90 test_gravity.f90 \
test_derivs.f90 test_cooling.f90 test_eos_stratified.f90 \
test_eos.f90 test_externf.f90 test_rwdump.f90 \
test_nonidealmhd.F90 directsum.f90 test_gravity.f90 \
test_derivs.F90 test_cooling.f90 test_eos_stratified.f90 \
test_eos_stam.f90 test_eos.f90 test_externf.f90 test_rwdump.f90 \
test_step.F90 test_indtstep.f90 ${SRCSETSTAR} utils_filenames.f90 utils_tables.f90 \
grids_for_setup.f90 set_disc.f90 set_orbit.f90 test_setdisc.F90 test_setstar.f90 \
test_hierarchical.f90 test_damping.f90 test_wind.f90 test_iorig.f90 \
Expand Down Expand Up @@ -777,7 +776,7 @@ interpolate3D_amr.o: adaptivemesh.o
ifndef MODDUMPBIN
MODDUMPBIN=phantommoddump
endif
OBJMOD1 = ${OBJSETSTAR} velfield_fromcubes.o set_vfield.o\
OBJMOD1 = ${OBJSETSTAR} eos_stamatellos.o velfield_fromcubes.o set_vfield.o\
set_disc.o set_Bfield.o utils_omp.o\
${MODFILE:.f90=.o} phantom_moddump.o
OBJMOD = ${OBJMOD1:.F90=.o}
Expand Down
11 changes: 11 additions & 0 deletions build/Makefile_setups
Original file line number Diff line number Diff line change
Expand Up @@ -1070,6 +1070,17 @@ ifeq ($(SETUP), testapr)
PERIODIC=yes
endif

ifeq ($(SETUP), testcoolra)
# star cluster formation
SETUPFILE= setup_sphere.f90
ISOTHERMAL=no
GRAVITY=yes
CONST_AV=yes
IND_TIMESTEPS=yes
KNOWN_SETUP=yes
endif


ifeq ($(SETUP), flrw)
# constant density FLRW cosmology with perturbations
GR=yes
Expand Down
183 changes: 183 additions & 0 deletions data/cooling/Masunaga_2000_collapse.csv
Original file line number Diff line number Diff line change
@@ -0,0 +1,183 @@
-18.796414666523667, 0.760070380999812
-18.719550137300093, 0.782785698360307
-18.603801199175187, 0.7738265743823884
-18.484435106733876, 0.766915250170852
-18.365069014292565, 0.752560961423816
-18.245702921851255, 0.7337763366437411
-18.126336829409944, 0.7401560205313142
-18.006970736968633, 0.7206625419859547
-17.887604644527322, 0.7128651505678105
-17.76823855208601, 0.7151689253049893
-17.6488724596447, 0.7064854666802383
-17.529506367203386, 0.703472838177774
-17.410140274762075, 0.7064854666802383
-17.290774182320764, 0.7032956247364526
-17.171408089879453, 0.7048905457083459
-17.052041997438142, 0.707371533886846
-16.93267590499683, 0.7109158027132745
-16.81330981255552, 0.7141056446570611
-16.69394372011421, 0.71889040757274
-16.574577627672898, 0.723675170488419
-16.455211535231587, 0.728459933404098
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-2.478527256648988, 3.817290215636951
-2.359161164207677, 3.843872231835168
-2.239795071766366, 3.87346687653585
-2.1204289793250553, 3.9060741497389966
-2.0010628868837443, 3.939744703590072
-1.8816967944424334, 3.97979494132872
-1.767756433475725, 4.017771781803906
-1.659241803983626, 4.060462499818243
-1.5507271744915236, 4.104322826545301
-1.4476382764740272, 4.147360095289335
-1.3445493784565343, 4.191068806072151
-1.2360347489644319, 4.234734198013756
-1.122094387997727, 4.277159095866111
-1.002728295556416, 4.316854906722115
-0.8833622031151052, 4.350879887455833
-0.7639961106737942, 4.380651745597837
-0.6446300182324833, 4.414322299448912
-0.5361153887403809, 4.45644002733631
-0.44930368514669894, 4.498675897517922
-0.373343444502229, 4.539612202463177
-0.29738320385775907, 4.583333290057768
-0.22142296321328914, 4.62705437765236
-0.1400369910942132, 4.671193182644352
-0.04779955602592523, 4.7128875673108155
0.03358641609315072, 4.751766227298504
0.09326946231380617, 4.795756510549198
0.1692297029582761, 4.844143656182902
0.277744332450375, 4.885532839922645
0.39168469341708345, 4.92655775158856
0.48392212848536786, 4.968468730461082
0.5598823691298378, 5.0130252528504755
0.6304168782997053, 5.056839166533378
0.6955256559949632, 5.100699493260437
0.7606344336902247, 5.1448847112965845
0.8257432113854861, 5.19069438587818
0.8908519890807476, 5.2371538430779525
0.9559607667760055, 5.282638626350458
1.015643812996661, 5.324419648699345
1.0916040536411344, 5.370250982701545
1.1458613683871839, 5.389527867040845
1 change: 1 addition & 0 deletions data/cooling/README
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Tabulated cooling functions, first column is temperature, second column is cooling rate
Masunaga_2000_collapse.csv: log density and log Temperature for the uniform sphere collapse test used by testcoolra
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