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SAM Changelog

v1.3

Bug Fixes

• Fixed KKT validation: inactive groups are now checked after every Level 1 iteration, not only when not converged.
• Fixed grpSVM ya_idx active-set logic that only checked the first element of each group instead of all p coefficients.
• Replaced assert() with runtime error checks in grplasso, grpLR, and grpPR (asserts are compiled out under -DNDEBUG).
• Added NULL checks for all malloc calls in grpSVM.

New Features

• dfmax parameter for early stopping when the number of non-zero groups exceeds a threshold (all four families).
• verbose parameter to print per-lambda iteration info.
• Deviance-ratio and deviance-change early stopping (dev.ratio.thr, dev.change.thr) for samQL, samLL, and samEL.
• Unified sam() entry point dispatching by family argument (R and Python).
• coef() S3 methods for all four model classes.
• solver = "actgd" option for samQL (group active gradient descent with strong-rule screening, L1 only).
• type.gaussian option for samQL ("naive" / "covariance" / "auto").
• runtime field on fitted objects (R: $runtime, Python: .runtime_seconds).

Python Wrapper

• New pysam-sam Python package calling the same C++ core via ctypes.
• Pure-Python spline basis (no R dependency at runtime).
• Full API parity: samLL, samHL, samEL, samQL + predict functions.

Performance

• Cached wXX products and no-op update_auxiliary for linear objective.
• C API deduplication via c_api_utils.h.

Code Quality

• Removed redundant fit$nkots field from R wrappers.
• Removed unused fit$XX (full design matrix) from samQL output.
• Removed unused V(d) declarations in grpLR and grpPR.
• Extracted shared .sam_print_path() / .sam_plot_path() helpers.
• Removed unused scipy dependency from Python package.
• Fixed legacy PICASSO_SOLVER_PARAMS_H header guard.
• Added root .gitignore.
• Added test coverage for samHL and samEL.

v1.2

• Initial CRAN release with samQL, samLL, samEL, samHL.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.