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Merge the tomography branch into develop - #402

Merged

cailmdaley merged 125 commits into

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merge/tomo-into-develop

Oct 5, 2026

Commits on Jul 1, 2026
- (ruff) Commit modifications by the ruff pre-commit
  Sacha Guerrini
  committed
  27f24af
- (Test) Add test data for the test run of the GLASS sims. Runs end to end with the new API. Updated the run script to the most recent version of GLASS
  Sacha Guerrini
  committed
  f8fb92f
- (feature) Add an option to run the shell cl with limber approximation
  Sacha Guerrini
  committed
  2b94f40
- (ruff) Commit ruff changes
  Sacha Guerrini
  committed
  50de95a
- Update the installation of glass to the most recent version
  Sacha Guerrini
  committed
  49f4cce
- Add the possibility to input a list of bias, shape noise, and number density.
  Sacha Guerrini
  committed
  b9e9722
Commits on Jul 2, 2026
- Add functions to perform a rapid validation of shape noise and number density at runtime.
  Sacha Guerrini
  committed
  3d91e1e
- Fix bugs in the CAMB angular power spectra estimation in
  Sacha Guerrini
  committed
  7dd5a86
- Add functions from namaster_util to prepare the upgrade to tomography for harmonic space estimators
  Sacha Guerrini
  committed
  90c3bda
Commits on Jul 3, 2026
- Add tomography pseudo-cl DV measurement.
  Sacha Guerrini
  committed
  875f65d
- Fix bugs and tests to the new API to pass the CI
  Sacha Guerrini
  committed
  57980dd
- Account for Martin's comment. Merged non-tomo and tomo functions into one API.
  Sacha Guerrini
  committed
  a941f54
Commits on Jul 6, 2026
- Account for Fable review
  Sacha Guerrini
  committed
  a1d28a4
- (fix) KeyError for the unspecified tomo_bin_col
  Sacha Guerrini
  committed
  2b84eb6
- Upgrade the iNKA covariance estimation to tomography
  Sacha Guerrini
  committed
  753abc1
- (ruff) Fix bugs flagged by Ruff at the previous commit step
  Sacha Guerrini
  committed
  ac31d60
- (fix) Implement the bug fix detected by Copilot
  Sacha Guerrini
  committed
  12842c8
- (fix) GLASS mock allowing negative right ascension conflicting with NaMaster
  Sacha Guerrini
  committed
  0f6daa3
Commits on Jul 8, 2026
- Finalise the loop to compute iNKA pseudo-cl covariance. Add GLASS mock to the config file.
  Sacha Guerrini
  committed
  38289f0
Commits on Jul 9, 2026
- Clean bugs and add function to plot nicely the pseudo-cl.
  Sacha Guerrini
  committed
  81a010a
- Merge pull request #237 from CosmoStat/develop
  sachaguer
  authored
  6736e02
- Merge branch 'feature/tomo-pseudo-cl' into feature/sp_validation-extend-to-tomography
  sachaguer
  authored
  e7d241a
- Update the import in core comos_val of cs_util get_cosmo function.
  Sacha Guerrini
  committed
  ab93109
- Merge pull request #238 from CosmoStat/feature/sp_validation-extend-to-tomography
  sachaguer
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  9be64ac
- Revert "Tomographic pseudo-cl"
  sachaguer
  authored
  f499ac8
- Merge pull request #239 from CosmoStat/revert-221-feature/tomo-pseudo-cl
  sachaguer
  authored
  d917c65
Commits on Jul 16, 2026
- Add unit tests for the tomographic pseudo cls
  Sacha Guerrini
  committed
  6eabbc6
Commits on Jul 17, 2026
- Fix non-tomo branch bug in the _merge_iNKA_covariance_function
  Sacha Guerrini
  committed
  dee0141
- Fix small bugs identified by Fable
  Sacha Guerrini
  committed
  21863bc
- Update the cl tests accounting for Fable comments
  Sacha Guerrini
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  8996879
- Merge conflicts
  Sacha Guerrini
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  d5a7b59
- Reapply "Tomographic pseudo-cl"
  Sacha Guerrini
  committed
  9c948cd
- Fix Ruff errors
  Sacha Guerrini
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  3146790
- Add get_cosmo import in core CosmoValidation that disappeared in the merging process.
  Sacha Guerrini
  committed
  7eca12e
- Merge pull request #240 from CosmoStat/feature/tomo-pseudo-cl
  sachaguer
  authored
  42b2746
- Merge branch 'feature/sp_validation-extend-to-tomography' into feature/glass
  sachaguer
  authored
  65648ea
- add a script to run gaussian simulations for covariance estimation
  Sacha Guerrini
  committed
  335961e
- Add docstring
  Sacha Guerrini
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  07a1dcb
Commits on Jul 20, 2026
- Fix multiple bugs in the script.
  Sacha Guerrini
  committed
  9a940d4
- Fix bug related to noise bias decoupling
  Sacha Guerrini
  committed
  fb40fa7
- Fix typo in the value of
  Sacha Guerrini
  committed
  6ec19cf
Commits on Jul 21, 2026
- Add print of the decoupling of the noise bias
  Sacha Guerrini
  committed
  59d6098
- Fix bugs in the non-tomographic branch
  Sacha Guerrini
  committed
  39bc6db
- Align namaster and fiducial binning for the covariance
  Sacha Guerrini
  committed
  8943571
- Add options to save EB and BB covariances from Gaussian simulations
  Sacha Guerrini
  committed
  45e938d
- Fix the small things from Claude
  Sacha Guerrini
  committed
  acb7798
- Add seed to the gaussian simulations run script
  Sacha Guerrini
  committed
  618bddd
- Merge pull request #291 from CosmoStat/bug/inka_covariance
  sachaguer
  authored
  f8d814c
- Merge pull request #286 from CosmoStat/feature/cl-gaussian-sims
  sachaguer
  authored
  496d181
- Merge pull request #219 from CosmoStat/feature/glass
  sachaguer
  authored
  1a430e8
Commits on Jul 23, 2026
- Start modifying the onecovariance routine to account for tomography
  Sacha Guerrini
  committed
  3862e4d
Commits on Jul 24, 2026
- Fix bugs identified in Claude first review
  Sacha Guerrini
  committed
  bbf5215
- Reorganise the functions
  Sacha Guerrini
  committed
  c7e3275
- Update the merge of Gaussian and non-Gaussian part of the covariance
  Sacha Guerrini
  committed
  ff3be19
- Update the merge of Gaussian and non-Gaussian part of the covariance
  Sacha Guerrini
  committed
  1788693
- Modify the onecov config to match the cosmo object parameters
  Sacha Guerrini
  committed
  d1fa65c
- Fix KeyErro in iNKA covariance
  Sacha Guerrini
  committed
  4dfa292
- Fix wrong load of COVAR_EE_EE iNKA covariance
  Sacha Guerrini
  committed
  615426d
- Fix the update of cosmo params
  Sacha Guerrini
  committed
  194857e
- Fetch the sum of neutrino mass from the cosmo object for OneCovariance
  Sacha Guerrini
  committed
  9c13693
- Handle the redshift distribution in the non-tomographic case
  Sacha Guerrini
  committed
  a8052d8
- Update the load onecovariance script to handle tomography
  Sacha Guerrini
  committed
  0d10d54
- Update the tests for the onecovariance merge
  Sacha Guerrini
  committed
  debf000
- Tomographic rho-/tau-statistics (#295)
  sachaguer
  authored
  ee75f53
Commits on Jul 27, 2026
- Tomographic 2pcf calculation with treecorr (#297)
  LisaGoh
  authored
  18b90db
Commits on Jul 30, 2026
- merge develop
  LisaGoh
  committed
  af262b7
Commits on Aug 24, 2026
- Update de scale dependent plotting script to read the computed rho-tau-stats and plot tomography
  Sacha Guerrini
  committed
  2fc8ee0
Commits on Aug 25, 2026
- Update the plotting script for the scale dependent xi_sys
  Sacha Guerrini
  committed
  35795ab
- Update the pyproject.toml
  Sacha Guerrini
  committed
  ed942aa
- Fix the pyproject.toml
  Sacha Guerrini
  committed
  7eed696
- Fix the pyproject.toml
  Sacha Guerrini
  committed
  744614e
Commits on Aug 26, 2026
- Merge pull request #298 from CosmoStat/feature/harmonic-onecovariance-tomo
  sachaguer
  authored
  738768a
- Update the objectwise leakage to run in the tomographic case.
  Sacha Guerrini
  committed
  a66b48b
Commits on Oct 2, 2026
- Merge remote-tracking branch 'origin/feature/sp_validation-extend-to-tomography' into tomo307-work
  cailmdaley
  committed
  2a442e7
- psf_systematics: seeded Monte-Carlo errors for alpha and xi_psf_sys
  
  cailmdaley
  and
  claude
  committed
  4d4ea33
- psf_systematics: auto-bin xi_psf_sys errors reuse one tau draw
  
  cailmdaley
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  claude
  committed
  76f04a2
- psf_systematics: cross-bin xi_psf_sys errors use each bin's tau variance
  
  cailmdaley
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  claude
  committed
  ed7bfbf
- psf_systematics: xi_psf_sys errorbars in the legend's version colour
  
  cailmdaley
  and
  claude
  committed
  a1a6198
- Object-wise leakage plot reads per-bin coefficients; alpha summaries from rho/tau
  
  cailmdaley
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  claude
  committed
  0f63bfd
- Test PSF-leakage helpers and the object-wise plot on synthetic data
  
  cailmdaley
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  claude
  committed
  fedde75
- Object-wise leakage: a version dropped for a missing column stays dropped
  
  cailmdaley
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  claude
  committed
  03b37a3
- uv.lock: shear_psf_leakage develop@f1a2c071 (object-wise row selection and per-bin suffix)
  
  cailmdaley
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  claude
  committed
  5c94bbc
- Merge develop into the tomography branch (#374)
  
  cailmdaley
  and
  claude
  committed
  0d5f2ad
- Merge pull request #307 from CosmoStat/feature/tomo-objectwise-leakage
  cailmdaley
  authored
  476ae55
- Point the non-tomographic workflow at the merged tomographic API
  
  cailmdaley
  and
  claude
  committed
  7781c87
- Read the ("all", "all") pair in the B-mode summary and the SACC n(z)
  
  cailmdaley
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  claude
  committed
  2ae102a
- Move the tests onto the merged API and pin the repaired seams
  
  cailmdaley
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  claude
  committed
  613e871
- Repair the tomography branch's own callers of reshaped helpers
  
  cailmdaley
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  claude
  committed
  b9a9e9b
- Merge the tomography branch (#307, tomographic leakage) into the integration branch
  
  cailmdaley
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  claude
  committed
  8631f60
- Apply pixel windows only to map-based pseudo-Cl spectra
  
  cailmdaley
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  claude
  committed
  45c51e5
- Pin the OneCovariance fixture to the real table; drop the GLASS xfail
  
  cailmdaley
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  claude
  committed
  497d7b8
- Keep the GLASS xfail until the re-locked image; cite the OneCovariance writer
  
  cailmdaley
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  claude
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  9010a8c
- Name the jackknife rho/tau draws by the id the library writes them under
  
  cailmdaley
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  claude
  committed
  f7f2abb
- Compute the iNKA fiducial C_ell with CCL, from the configured cosmology
  
  cailmdaley
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  claude
  committed
  d603c5c
- Default the catalogue pseudo-Cl wrapper to the ("all", "all") pair
  
  cailmdaley
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  claude
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  551f5c9
- Let the object-wise leakage reader take a row selection
  
  cailmdaley
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  claude
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  465ae28
- Restore Hartlap debiasing of simulation rho/tau covariances
  
  cailmdaley
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  claude
  committed
  e3bd484
- Seed jackknife patches across tomographic bins
  
  cailmdaley
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  claude
  committed
  e6406e4
- Expect the rho/tau SACC part under the tomo_bin_all basename in the DAG test
  
  cailmdaley
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  claude
  committed
  989e0eb
- Route rho/tau workflow paths through cv_basename helpers
  
  cailmdaley
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  claude
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  88fa858
Commits on Oct 3, 2026
- Keep the iNKA fiducial C_ell on CAMB, as the tomography branch computes it
  
  cailmdaley
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  claude
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  f2275a7
- Tolerate NFS placeholders when the covariance rule clears its work directory
  
  cailmdaley
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  d6356c9
- plot_tau_stats: use the tau-statistics error bars when no covariance type is given
  
  cailmdaley
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  claude
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  454e802
- Plot tau statistics with the configured tau covariance
  
  cailmdaley
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  claude
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  a769e10
Commits on Oct 5, 2026
- Keep the joint pure-B Hartlap correction tied to its full data dimension
  
  cailmdaley
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  codex
  committed
  03bd3ad
- Protect the pinned TreeCorr layout from node CPU-count changes
  
  cailmdaley
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  codex
  committed
  c380868
- Require pure-E/B MC rebinning to use the data pair weights
  
  cailmdaley
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  codex
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  5e5a640
- Keep covariance jobs inside the launched checkout and results tree
  
  cailmdaley
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  codex
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  d1a1c94
- Keep the rho/tau driver on the launched catalogue configuration
  
  cailmdaley
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  codex
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  bdfed2b
- Require both configured HSM flags to exclude failed star fits
  
  cailmdaley
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  codex
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  b0a1652
- Require PSF fit sample widths to follow the selected covariance
  
  cailmdaley
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  codex
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  eda87f8
- Check pure-E/B statistics through the bin-keyed result API
  
  cailmdaley
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  codex
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  dd9e467
- Honor tomography when plotting and saving each COSEBIs bin pair
  
  cailmdaley
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  codex
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  a71e5fa
- Transpose the opposite polarization block to preserve joint iNKA covariance
  
  cailmdaley
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  codex
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  0250493
- Aggregate Gaussian spectra from the requested seed rather than stale files
  
  cailmdaley
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  codex
  committed
  426b940
- Track per-bin tau centering as an upstream leakage defect
  
  cailmdaley
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  codex
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  c0b2ac4
- Exercise the active covariance theory and workflow plotting APIs
  
  cailmdaley
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  codex
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  114486c
- Average rho/tau jackknife covariances over seeded independent layouts
  
  cailmdaley
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  codex
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  a6e0765
- Restore BE readback for single-field pseudo-Cl auto-spectra
  
  cailmdaley
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  codex
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  5c25e3e
- Reject a single COSEBIs covariance for tomographic pairs
  
  cailmdaley
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  codex
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  5d3b5d2
- Continue the iNKA noise bias below l_min at the lowest band's value
  
  cailmdaley
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  3367b2b
- Give the tomographic COSEBIs regression per-pair jackknife covariances
  
  cailmdaley
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  7b34411
- Merge pull request #394 from CosmoStat/merge/develop-into-tomo
  cailmdaley
  authored
  2ff1b50
- Merge the tomography branch into develop (#375 step 4)
  
  cailmdaley
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  cae96c5
- GLASS suite DAG test: name rho/tau placeholders through cv_basename
  
  cailmdaley
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  fee38cc

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