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Update EAGLE sbatch script #195

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Merged
robjmcgibbon merged 1 commit into from
Oct 10, 2025
Merged

Update EAGLE sbatch script #195

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19 changes: 15 additions & 4 deletions scripts/EAGLE.sh
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Original file line number Diff line number Diff line change
Expand Up @@ -9,6 +9,14 @@
#SBATCH --exclusive
#SBATCH -t 02:00:00
#
# For L0025N0752 set ntasks=16
# For L0100N1504 set ntasks=256
#
# Install Hdecompose with:
# pip install git+ssh://git@github.com/kyleaoman/Hdecompose.git
#
# Download virtual snapshot script with:
# wget https://gitlab.cosma.dur.ac.uk/swift/swiftsim/-/raw/master/tools/create_virtual_snapshot.py

sim_name='L0100N1504'
snap_nr="028"
Expand All @@ -17,7 +25,6 @@ z_suffix="z000p000"
module purge
module load python/3.12.4 gnu_comp/14.1.0 openmpi/5.0.3 parallel_hdf5/1.12.3
source openmpi-5.0.3-hdf5-1.12.3-env/bin/activate
pip install git+ssh://git@github.com/kyleaoman/Hdecompose.git

######## Link files to snap (to remove awful z suffix)

Expand Down Expand Up @@ -65,12 +72,16 @@ mpirun -- python -u misc/hdecompose_hydrogen_fractions.py \
######### Create virtual snapshot
# Must be run from the snapshot directory itself or there will be issues with paths

soap_dir=$(pwd)
cd "${output_dir}/swift_snapshots/swift_${snap_nr}"
wget https://gitlab.cosma.dur.ac.uk/swift/swiftsim/-/raw/master/tools/create_virtual_snapshot.py
python create_virtual_snapshot.py "snap_${snap_nr}.0.hdf5"
rm create_virtual_snapshot.py*
python "${soap_dir}/create_virtual_snapshot.py" "snap_${snap_nr}.0.hdf5"
cd -

python compression/make_virtual_snapshot.py \
"${output_dir}/swift_snapshots/swift_${snap_nr}/snap_${snap_nr}.hdf5" \
"${output_dir}/SOAP_uncompressed/membership_${snap_nr}/membership_${snap_nr}.{file_nr}.hdf5" \
"${output_dir}/SOAP_uncompressed/snap_${snap_nr}.hdf5" \

######### Run SOAP

chunks=10
Expand Down