PR 7: adopt CosmoSIS native SACC likelihood (sacc_like), validated against the converter path

README.md

@@ -96,18 +96,6 @@ uv venv --python 3.12
 uv pip install -e '.[test]'
 ```
 
-To also install the data-vector blinding stack (Smokescreen + firecrown, PRD
-[#241](https://github.com/CosmoStat/sp_validation/issues/241)), pass the
-dependency-override file — firecrown is not pip-resolvable without it (see
-`uv-overrides.txt` for why):
-
-```bash
-uv pip install --overrides uv-overrides.txt -e '.[test,blinding]'
-python scripts/patch_firecrown.py  # make pip-installed firecrown importable without NumCosmo
-```
-
-
-
 ## Flow chart
 
 The following flow chart illustrates the steps required to go from ShapePipe output products

cosmo_inference/cosmosis_config/cosmosis_pipeline_A_ia.ini

@@ -0,0 +1,108 @@
+#parameters used elsewhere in this file
+[DEFAULT]
+COSMOSIS_DIR = /n23data1/n06data/lgoh/scratch/cosmosis-standard-library_lisa
+
+
+[pipeline]
+modules = consistency sample_S8 camb load_nz_fits photoz_bias linear_alignment projection add_intrinsic 2pt_shear shear_m_bias 2pt_like 
+likelihoods = 2pt_like 
+extra_output = cosmological_parameters/omega_lambda cosmological_parameters/S_8 cosmological_parameters/sigma_8 cosmological_parameters/omega_m
+timing = T
+debug = T
+
+[runtime]
+sampler = polychord
+verbosity = debug
+
+[polychord]
+live_points = 192
+feedback = 3
+resume = T
+base_dir = %(SCRATCH)s/polychord
+
+[test]
+
+[output]
+format = text
+lock = F
+
+[consistency]
+file = %(COSMOSIS_DIR)s/utility/consistency/consistency_interface.py
+verbose = F
+
+[sample_S8]
+file = %(COSMOSIS_DIR)s/utility/sample_sigma8/sample_S8.py
+
+[camb]
+file = %(COSMOSIS_DIR)s/boltzmann/camb/camb_interface.py
+mode=power
+lmax=2508
+feedback=0
+do_reionization=F
+kmin=1e-5
+kmax=20.0
+nk=200
+zmax=5.0
+zmax_background=5.0
+nz_background=500
+halofit_version=mead2020_feedback
+nonlinear=pk
+neutrino_hierarchy=normal
+kmax_extrapolate = 500.0
+
+[load_nz_fits]
+file = %(COSMOSIS_DIR)s/number_density/load_nz_fits/load_nz_fits.py
+nz_file =%(FITS_FILE)s
+data_sets = SOURCE
+
+[photoz_bias]
+file = %(COSMOSIS_DIR)s/number_density/photoz_bias/photoz_bias.py
+mode = additive
+sample = nz_source
+bias_section = nofz_shifts
+interpolation = cubic
+output_deltaz_section_name = delta_z_out
+
+[linear_alignment]
+file = %(COSMOSIS_DIR)s/intrinsic_alignments/la_model/linear_alignments_interface_znla.py
+method = bk_corrected
+
+[projection]
+file = %(COSMOSIS_DIR)s/structure/projection/project_2d.py
+ell_min_logspaced = 1.0
+ell_max_logspaced = 25000.0
+n_ell_logspaced = 400
+shear-shear = source-source
+shear-intrinsic = source-source
+intrinsic-intrinsic = source-source
+get_kernel_peaks = F
+verbose = F
+
+[add_intrinsic]
+file = %(COSMOSIS_DIR)s/shear/add_intrinsic/add_intrinsic.py
+shear-shear=T
+position-shear=F
+perbin=F
+
+[2pt_shear]
+file = %(COSMOSIS_DIR)s/shear/cl_to_xi_nicaea/nicaea_interface.so
+corr_type = 0  ; shear_cl -> shear_xi
+
+[shear_m_bias]
+file = %(COSMOSIS_DIR)s/shear/shear_bias/shear_m_bias.py
+m_per_bin = True
+; Despite the parameter name, this can operate on xi as well as C_ell.
+cl_section = shear_xi_plus shear_xi_minus
+verbose = F
+
+[2pt_like]
+file = %(COSMOSIS_DIR)s/likelihood/2pt/2pt_like.py
+data_file=%(FITS_FILE)s
+gaussian_covariance=F
+covmat_name=COVMAT
+cut_zeros=F
+data_sets=XI_PLUS XI_MINUS
+like_name=2pt_like
+
+angle_range_XI_PLUS_1_1= 10.0 200.0
+angle_range_XI_MINUS_1_1= 20.0 200.0

cosmo_inference/cosmosis_config/cosmosis_pipeline_A_ia_sacc.ini

@@ -0,0 +1,110 @@
+#parameters used elsewhere in this file
+[DEFAULT]
+COSMOSIS_DIR = /n23data1/n06data/lgoh/scratch/cosmosis-standard-library_lisa
+
+
+[pipeline]
+modules = consistency sample_S8 camb load_nz_sacc photoz_bias linear_alignment projection add_intrinsic 2pt_shear shear_m_bias sacc_like
+likelihoods = 2pt_like
+extra_output = cosmological_parameters/omega_lambda cosmological_parameters/S_8 cosmological_parameters/sigma_8 cosmological_parameters/omega_m
+timing = T
+debug = T
+
+[runtime]
+sampler = polychord
+verbosity = debug
+
+[polychord]
+live_points = 192
+feedback = 3
+resume = T
+base_dir = %(SCRATCH)s/polychord
+
+[test]
+
+[output]
+format = text
+lock = F
+
+[consistency]
+file = %(COSMOSIS_DIR)s/utility/consistency/consistency_interface.py
+verbose = F
+
+[sample_S8]
+file = %(COSMOSIS_DIR)s/utility/sample_sigma8/sample_S8.py
+
+[camb]
+file = %(COSMOSIS_DIR)s/boltzmann/camb/camb_interface.py
+mode=power
+lmax=2508
+feedback=0
+do_reionization=F
+kmin=1e-5
+kmax=20.0
+nk=200
+zmax=5.0
+zmax_background=5.0
+nz_background=500
+halofit_version=mead2020_feedback
+nonlinear=pk
+neutrino_hierarchy=normal
+kmax_extrapolate = 500.0
+
+[load_nz_sacc]
+file = %(COSMOSIS_DIR)s/number_density/load_nz_sacc/load_nz_sacc.py
+nz_file = %(SACC_FILE)s
+data_sets = source
+
+[photoz_bias]
+file = %(COSMOSIS_DIR)s/number_density/photoz_bias/photoz_bias.py
+mode = additive
+sample = nz_source
+bias_section = nofz_shifts
+interpolation = cubic
+output_deltaz_section_name = delta_z_out
+
+[linear_alignment]
+file = %(COSMOSIS_DIR)s/intrinsic_alignments/la_model/linear_alignments_interface_znla.py
+method = bk_corrected
+
+[projection]
+file = %(COSMOSIS_DIR)s/structure/projection/project_2d.py
+ell_min_logspaced = 1.0
+ell_max_logspaced = 25000.0
+n_ell_logspaced = 400
+shear-shear = source-source
+shear-intrinsic = source-source
+intrinsic-intrinsic = source-source
+get_kernel_peaks = F
+verbose = F
+
+[add_intrinsic]
+file = %(COSMOSIS_DIR)s/shear/add_intrinsic/add_intrinsic.py
+shear-shear=T
+position-shear=F
+perbin=F
+
+[2pt_shear]
+file = %(COSMOSIS_DIR)s/shear/cl_to_xi_nicaea/nicaea_interface.so
+corr_type = 0  ; shear_cl -> shear_xi
+
+[shear_m_bias]
+file = %(COSMOSIS_DIR)s/shear/shear_bias/shear_m_bias.py
+m_per_bin = True
+; Despite the parameter name, this can operate on xi as well as C_ell.
+cl_section = shear_xi_plus shear_xi_minus
+verbose = F
+
+; Native SACC likelihood via the sp_validation shim (arcmin->rad + ordering
+; guard over CosmoSIS's SaccClLikelihood). data_sets/angle ranges use the SACC
+; grammar (full data-type names + tracer pairs). like_name=2pt_like keeps the
+; block keys identical to the 2pt_like path so chain post-processing is unchanged.
+[sacc_like]
+file = %(SP_VALIDATION_MODULES)s/sacc_like_unions.py
+csl_dir = %(COSMOSIS_DIR)s
+data_file = %(SACC_FILE)s
+data_sets = galaxy_shear_xi_plus galaxy_shear_xi_minus
+like_name = 2pt_like
+
+angle_range_galaxy_shear_xi_plus_source_0_source_0 = 10.0 200.0
+angle_range_galaxy_shear_xi_minus_source_0_source_0 = 20.0 200.0

papers/cosmo_val/config/config.yaml

@@ -121,11 +121,14 @@ harmonic:
     binning: powspace
     nbins: 32
 
-# Cosmological inference data-product locations (dormant subsystem).
+# Cosmological inference data-product locations + tooling.
 inference:
   chains_dir: "/n09data/guerrini/output_chains"
   glass_mock_data_dir: "/n09data/guerrini/glass_mock_v1.4.6/results"
   glass_mock_chains_dir: "/n09data/guerrini/glass_mock_chains"
+  # CosmoSIS Standard Library checkout — fills COSMOSIS_DIR in the generated
+  # pipeline inis (the module `file =` paths and the sacc_like shim's csl_dir).
+  csl_dir: "/n23data1/n06data/lgoh/scratch/cosmosis-standard-library_lisa"
 
 cosebis:
   theta_min: 1.0

pyproject.toml

@@ -160,6 +160,14 @@ workflow = [
     # published or resolvable (no public repo found) — left undeclared pending
     # its source. Same for `unions_wl` (scripts/check_footprint.py).
 ]
+# Native SACC inference likelihood (sp_validation.sacc_like_unions), which
+# subclasses CosmoSIS's SaccClLikelihood. The engine modules it needs are pure
+# python, so tests/test_sacc_like.py runs with just this extra plus a CosmoSIS
+# Standard Library checkout pointed at by CSL_DIR:
+#   git clone --depth 1 https://github.com/joezuntz/cosmosis-standard-library CSL
+#   CSL_DIR=/path/to/CSL  pytest ... test_sacc_like.py
+# Not installed by the container image, so inert in CI.
+cosmosis = ["cosmosis>=3.25"]
 develop = ["sp_validation[test,docs]"]
 
 [tool.pytest.ini_options]