UNITY

A package for performing supernova cosmology using Bayesian Hierarchical Models

Installation

For convenience, many of the top-level administrative functions are collected into a Makefile. To install this repository, simply run make install.

Please note that Stan 3 does not make it super easy to install on anything other than Linux. I've enabled the no-binary flag on the pystan dependency in the pyproject.toml file to try and force a rebuild, but I'm not sure if it will work.

Please see the Apple specific instructions if it fails.

Alternatively, there is a way to build an image of the repository which may be easier to run. Simply make image and hopefully an image will be built and then there's an example of running it in the Makefile, accessible via make run_image.

Running Unity

To kick off a run with the default configuration, try make run, which is just a shortcut for uv run union3.

You can customise what runs in a few ways.

1. If you have a config file with overrides in src/union3/configs, you can pass in the filename, like uv run union3 base=union3.0.yml
2. If you want temporary overrides, you can pass them in, like uv run union3 --filters.max_redshift 0.3 (see config.py for all the options)
3. You can also configure what's run via environment variables, which is especially useful when running via an image.

export FILTERS__MAX_REDSHIFT=0.3
uv run union3

Finally, the default log level is probably INFO. If you want to see more detail, you can control loguru's level with the LOGURU_LEVEL env var, so you could run export LOGURU_LEVEL=DEBUG to see more logs.

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OLD README BELOW

union3

Union3/UNITY1.5 repo

UNITY1.5 requires:

numpy==1.22.4 pystan==2.19.1.1 cython==3.0.10

Need to set these environment variables:

export UNITY=path/to/union3

export UNION=path/to/lcfits

export PATHMODEL=path/to/salt

For making the LC fits:

From Union3_Photometry:

python parse_nearby.py paramfile_default.txt

If a host galaxy or redshift is missing from the json, use:

python make_list_of_hosts.py LSQ14fep 0.06 0.01 PESSTO

or

python make_list_of_hosts.py LSQ13aiz "ESO 576-17"

From the Union3 directory, run:

python $PATHMODEL/python_code/tmpfit.py 0 4 1

where 4 is the number of LC fits to do at once.

python $PATHMODEL/python_code/cutfits.py [optional directories to look in]

For making the v1 files of SNe that pass cuts. Note that cutfits.py takes arguments if you only want to check some directories but not others.

For running UNITY:

python read_and_sample.py paramfile_Union3.txt 1

'1' is the cosmology model (flat LCDM, also available are flat Om-w, flat-w0wa with a BAO+CMB prior, and spline mu(z) for releasing distances). read_and_sample.py also makes a pickle file that can be used as input:

python read_and_sample.py inputs_XXX.pickle 1

This is much more portable/reproducable than making read_and_sample.py read in LC fits.

For updating filters or magnitude systems (magsys):

Union3_Photometry/NB99_also_contains_non_X-CALIBUR_magsys/AB_Landolt.py contains the color-transformed magnitude systems.

For magnitude systems and instruments: edit the original_* files in $PATHMODEL. Then run python_code/shiftfilters.py to make the files that are actually read in by SALT.

For regenerating the bulk-flow eigenvectors:

From BulkFlow/Public/Run_Example2:

python step1_make_Union3.py path/to/union3/

./pairV table.input table.input2

python step2_convert_to_fits.py

python step3_eig_reduce_n_at_a_time.py 1 100

For updating the CMB compression:

This merges the chains into one file, and unpacks the duplicated samples:

python step1_make_new_samps.py

python step2_make_cov_mat.py

For getting fidicial r_d for updating BAO:

python step2_standard_BAO.py

For evaluating phase cuts:

set_up_LC_tests.py

slurm_phase_testing.py

For doing simulated-data testing:

python $UNITY/simulated/step1_make_simLCs.py --ndataset 1 --addnoise 1 --addcalibration 1 --modeluncertainty 1 --prefixname sim_H0 --skewdist 1 --volumelimited 0 --obsmagselection 1 --zrangekeys LHV python $UNITY/simulated/step1_make_simLCs.py --ndataset 1 --addnoise 1 --addcalibration 1 --modeluncertainty 1 --prefixname sim_H0 --skewdist 1 --volumelimited 0 --obsmagselection 1 --zrangekeys SLHV --nnearbyperset 300 --ncalibperset 21 --sigzp 0.01

python $UNITY/simulated/step1B_Om_sampled_well.py