CUQIpy 1.3.0.post0.dev298__py3-none-any.whl → 1.4.0.post0.dev61__py3-none-any.whl

{cuqipy-1.3.0.post0.dev298.dist-info → cuqipy-1.4.0.post0.dev61.dist-info}/METADATA

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: CUQIpy
-Version: 1.3.0.post0.dev298
+Version: 1.4.0.post0.dev61
 Summary: Computational Uncertainty Quantification for Inverse problems in Python
 Maintainer-email: "Nicolai A. B. Riis" <nabr@dtu.dk>, "Jakob S. Jørgensen" <jakj@dtu.dk>, "Amal M. Alghamdi" <amaal@dtu.dk>, Chao Zhang <chaz@dtu.dk>
 License:                                  Apache License

{cuqipy-1.3.0.post0.dev298.dist-info → cuqipy-1.4.0.post0.dev61.dist-info}/RECORD

@@ -1,6 +1,6 @@
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+cuqi/__init__.py,sha256=TIdTvq0th4ywHVNGFovmEzneXxkpGWC-LlUdrxbPPLM,509
 cuqi/_messages.py,sha256=fzEBrZT2kbmfecBBPm7spVu7yHdxGARQB4QzXhJbCJ0,415
-cuqi/_version.py,sha256=VwUmSwCl1TjQCoMN2OC86V-9oKtS3snnE0i5gC_KQao,510
+cuqi/_version.py,sha256=S2ddEKfXvlEJwt4HQ_HYcSdVnIse2ZS69CQGg95CvD8,509
 cuqi/config.py,sha256=wcYvz19wkeKW2EKCGIKJiTpWt5kdaxyt4imyRkvtTRA,526
 cuqi/diagnostics.py,sha256=5OrbJeqpynqRXOe5MtOKKhe7EAVdOEpHIqHnlMW9G_c,3029
 cuqi/array/__init__.py,sha256=-EeiaiWGNsE3twRS4dD814BIlfxEsNkTCZUc5gjOXb0,30
@@ -13,77 +13,79 @@ cuqi/data/cat.npz,sha256=9H9iJqkvlCCVZZ2IWMfwwfVHbShpQTkZo_WGr7rrp3k,406164
 cuqi/data/cookie.png,sha256=mr6wUeoIUc5VC2qYj8vafOmTbcRwz0fHz4IIPK9_PnE,984680
 cuqi/data/satellite.mat,sha256=a0Nz_Ak-Y0m360dH74pa_rpk-MhaQ91ftGTKhQX7I8g,16373
 cuqi/density/__init__.py,sha256=0zfVcPgqdqiPkss5n_WP_PUt-G3ovHXjokhqEKIlLwA,48
-cuqi/density/_density.py,sha256=BG7gtP0cbFYLVgjYQGkNAhM95PR5ocBVLKRlOVX2PyM,7253
+cuqi/density/_density.py,sha256=Pfcq8b9MuTAuXxVwORRyNru_KIAFN1yHp2Y1yNwdyrg,7467
 cuqi/distribution/__init__.py,sha256=f-HM-SUrvPO66_FAJ6k4TffBq4H94OusRMDOJgcJU2w,779
 cuqi/distribution/_beta.py,sha256=QlibnuHNcvWjl-du5aRc9QuzS3n4PsyD_8Nc47w-E0Q,2903
 cuqi/distribution/_cauchy.py,sha256=Qwi21WkwUBnBkLbhR-yCGO0tQ_U_3mmvR0pDMPPPB5c,3296
 cuqi/distribution/_cmrf.py,sha256=tCbEulM_O7FB3C_W-3IqZp9zGHkTofCdFF0ybHc9UZI,3745
 cuqi/distribution/_custom.py,sha256=11lnAG7CS15bpV6JOOP--2YyKnAduvXY1IjAOJ1tqO0,10504
-cuqi/distribution/_distribution.py,sha256=mDSOjm2-f1we9wbfii2QEZ8gx03X_iZDt9XY4AGlOvE,17982
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 cuqi/distribution/_gamma.py,sha256=VcvBJS51N-MxuX42r9L2j2QYRlzhdgAtQ6Wa5IFO_YE,3536
 cuqi/distribution/_gaussian.py,sha256=3L1L_3W6i6YuPQ8vnFmju5QsvkLlg4VsgCnj11lYBUE,32977
 cuqi/distribution/_gmrf.py,sha256=OwId8qQWEtmC2fxVhL4iBHZnc8ZCrZzfV6yGXDE3k30,9522
 cuqi/distribution/_inverse_gamma.py,sha256=oPJuiYp3O1m547pmmIz9OWesky9YpwLTHT7-9MmcYss,3159
-cuqi/distribution/_joint_distribution.py,sha256=gBWDb9Aj27m74mSsm9Jj_0mSu0pcEk9Cwdxrzybiwx8,16710
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 cuqi/experimental/geometry/__init__.py,sha256=kgoKegfz3Jhr7fpORB_l55z9zLZRtloTLyXFDh1oF2o,47
 cuqi/experimental/geometry/_productgeometry.py,sha256=IlBmmKsWE-aRZHp6no9gUXGRfkHlgM0CdPBx1hax9HI,7199
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 cuqi/geometry/__init__.py,sha256=Tz1WGzZBY-QGH3c0GiyKm9XHN8MGGcnU6TUHLZkzB3o,842
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 cuqi/likelihood/__init__.py,sha256=QXif382iwZ5bT3ZUqmMs_n70JVbbjxbqMrlQYbMn4Zo,1776
-cuqi/likelihood/_likelihood.py,sha256=PuW8ufRefLt6w40JQWqNnEh3YCLxu4pz0h0PcpT8inc,7075
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 cuqi/model/__init__.py,sha256=jgY2-jyxEMC79vkyH9BpfowW7_DbMRjqedOtO5fykXQ,62
-cuqi/model/_model.py,sha256=Y7rMoJzw0FYJiP9pCH8E9Pr-vSdLKAlgTfU-V4-kXf0,68859
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 cuqi/operator/__init__.py,sha256=0pc9p-KPyl7KtPV0noB0ddI0CP2iYEHw5rbw49D8Njk,136
 cuqi/operator/_operator.py,sha256=yNwPTh7jR07AiKMbMQQ5_54EgirlKFsbq9JN1EODaQI,8856
-cuqi/pde/__init__.py,sha256=NyS_ZYruCvy-Yg24qKlwm3ZIX058kLNQX9bqs-xg4ZM,99
-cuqi/pde/_pde.py,sha256=FxCmMPcbRj9ulJbg3fPzQITfHKeW9I8r1S2v9Odz0WU,15806
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 cuqi/problem/__init__.py,sha256=JxJty4JqHTOqSG6NeTGiXRQ7OLxiRK9jvVq3lXLeIRw,38
-cuqi/problem/_problem.py,sha256=p1UO04GKv5BmdcPR5-xcP-idBsqShBxKJ3WC5qNSMDs,38588
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-cuqi/sampler/_sampler.py,sha256=TkZ_WAS-5Q43oICa-Elc2gftsRTBd7PEDUMDZ9tTGmU,5712
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 cuqi/samples/__init__.py,sha256=vCs6lVk-pi8RBqa6cIN5wyn6u-K9oEf1Na4k1ZMrYv8,44
 cuqi/samples/_samples.py,sha256=hUc8OnCF9CTCuDTrGHwwzv3wp8mG_6vsJAFvuQ-x0uA,35832
 cuqi/solver/__init__.py,sha256=KYgAi_8VoAwljTB3S2I87YnJkRtedskLee7hQp_-zp8,220
@@ -93,8 +95,8 @@ cuqi/testproblem/_testproblem.py,sha256=EJWG_zXUtmo6GlHBZFqHlRpDC_48tE0XZEu0_C66
 cuqi/utilities/__init__.py,sha256=d5QXRzmI6EchS9T4b7eTezSisPWuWklO8ey4YBx9kI0,569
 cuqi/utilities/_get_python_variable_name.py,sha256=wxpCaj9f3ZtBNqlGmmuGiITgBaTsY-r94lUIlK6UAU4,2043
 cuqi/utilities/_utilities.py,sha256=R7BdNysrE36a4D729DvfrTisWY4paP5nfqdkQxSX3Mg,18431
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cuqi/experimental/mcmc/__init__.py

@@ -1,122 +0,0 @@
-"""
-Re-implementation of sampler module in a more object-oriented way.
-
-Main changes for users
-----------------------
-
-1. Sampling API
-   ^^^^^^^^^^^^
-
-   Previously one would call the `.sample` or `sample_adapt` methods of a sampler instance at :py:mod:`cuqi.sampler` to sample from a target distribution and store the samples as the output as follows:
-
-   .. code-block:: python
-
-      from cuqi.sampler import MH
-      from cuqi.distribution import DistributionGallery
-
-      # Target distribution
-      target = DistributionGallery("donut")
-
-      # Set up sampler
-      sampler = MH(target)
-
-      # Sample from the target distribution (Alternatively calling sample with explicit scale parameter set in sampler)
-      samples = sampler.sample_adapt(Ns=100, Nb=100) # Burn-in (Nb) removed by default
-
-   This has now changed to to a more object-oriented API which provides more flexibility and control over the sampling process.
-
-   For example one can now more explicitly control when the sampler is tuned (warmup) and when it is sampling with fixed parameters.
-
-   .. code-block:: python
-
-      from cuqi.experimental.mcmc import MH
-      from cuqi.distribution import DistributionGallery
-
-      # Target distribution
-      target = DistributionGallery("donut")
-
-      # Set up sampler
-      sampler = MH(target)
-
-      # Sample from the target distribution
-      sampler.warmup(Nb=100)  # Explicit warmup (tuning) of sampler
-      sampler.sample(Ns=100)  # Sampling with fixed parameters
-      samples = sampler.get_samples().burnthin(Nb=100) # Getting samples and removing burn-in from warmup
-
-   Importantly, the removal of burn-in from e.g. warmup is now a separate step that is done after the sampling process is complete.
-
-2. Sampling API for BayesianProblem
-   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
-
-   :py:class:`cuqi.problem.BayesianProblem` continues to have the same API for `sample_posterior` and the `UQ` method.
-
-   There is now a flag `experimental` that can be set to `True` to use the new MCMC samplers.
-   
-   By default, the flag is set to `False` and the old samplers are used.
-
-   For this more high-level interface, burn-in is automatically removed from the samples as was the case before.
-
-
-3. More options for Gibbs sampling
-   ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
-
-   There are now more options for Gibbs sampling. Previously it was only possible to sample with Gibbs for samplers  :py:class:`cuqi.sampler.LinearRTO`, :py:class:`cuqi.sampler.RegularizedLinearRTO`, :py:class:`cuqi.sampler.Conjugate`, and :py:class:`cuqi.sampler.ConjugateApprox`.
-
-   Now, it is possible to define a Gibbs sampling scheme using any sampler from the :py:mod:`cuqi.experimental.mcmc` module.
-
-   **Example using a NUTS-within-Gibbs scheme for a 1D deconvolution problem:**
-
-   .. code-block:: python
-
-      import cuqi
-      import numpy as np
-      from cuqi.distribution import Gamma, Gaussian, GMRF, JointDistribution
-      from cuqi.experimental.mcmc import NUTS, HybridGibbs, Conjugate
-      from cuqi.testproblem import Deconvolution1D
-
-      # Forward problem
-      A, y_data, info = Deconvolution1D(dim=128, phantom='sinc', noise_std=0.001).get_components()
-
-      # Bayesian Inverse Problem
-      s = Gamma(1, 1e-4)
-      x = GMRF(np.zeros(A.domain_dim), 50)
-      y = Gaussian(A @ x, lambda s: 1 / s)
-
-      # Posterior
-      target = JointDistribution(y, x, s)(y=y_data)
-
-      # Gibbs sampling strategy. Note we can define initial_points and various parameters for each sampler
-      sampling_strategy = {
-          "x": NUTS(max_depth=10, initial_point=np.zeros(A.domain_dim)),
-          "s": Conjugate()
-      }
-
-      # Here we do 10 internal steps with NUTS for each Gibbs step
-      num_sampling_steps = {
-          "x": 10,
-          "s": 1
-      }
-
-      sampler = HybridGibbs(target, sampling_strategy, num_sampling_steps)
-
-      sampler.warmup(50)
-      sampler.sample(200)
-      samples = sampler.get_samples().burnthin(Nb=50)
-
-      samples["x"].plot_ci(exact=info.exactSolution)
-"""
-
-
-
-from ._sampler import Sampler, ProposalBasedSampler
-from ._langevin_algorithm import ULA, MALA, MYULA, PnPULA
-from ._mh import MH
-from ._pcn import PCN
-from ._rto import LinearRTO, RegularizedLinearRTO
-from ._cwmh import CWMH
-from ._laplace_approximation import UGLA
-from ._hmc import NUTS
-from ._gibbs import HybridGibbs
-from ._conjugate import Conjugate
-from ._conjugate_approx import ConjugateApprox
-from ._direct import Direct