Main - logged#15

Open

michaelJwilson wants to merge 126 commits intomainfrom

Commits on Aug 8, 2024

Commits on Aug 11, 2024

black formatted codes
Congm12
committed

Commits on Aug 12, 2024

add logging and tidy for calicost_main
Michael J. Wilson
committed
add logging info for hmrf_concatenate_pipeline.
Michael J. Wilson
committed
add logging for hmrfmix_concatenate_pipeline
Michael J. Wilson
committed
add logging for hmm_NB_BB_nophasing
Michael J. Wilson
committed
adding logging for update params in utils_hmm
Michael J. Wilson
committed
add logging of hmm_NB_BB_nophasing_v2
Michael J. Wilson
committed
add logging to hmm_NB_BB_phaseswitch
Michael J. Wilson
committed
add logging to hmrf and utils_IO.
Michael J. Wilson
committed
add logging to hmrf_pipeline
Michael J. Wilson
committed
add logging on Weighted_NegativeBinomial
Michael J. Wilson
committed
add logging of emission fitting.
Michael J. Wilson
committed
finish logging utils distribution fitting
Michael J. Wilson
committed
set error on MKL thread setting in calicost_supervised.
Michael J. Wilson
committed
fix == bug in setup.py
Michael J. Wilson
committed
fix errors with configuration of inner and outer loops
Michael J. Wilson
committed
fix issues around string and bracks from additional logging.
Michael J. Wilson
committed
fix errors around disp=False (statsmodels) and inconsistent conda/pip environment
Michael J. Wilson
committed
fix issue with multiple loggers.
Michael J. Wilson
committed
fix prefix bug
Michael J. Wilson
committed

Commits on Aug 15, 2024

revert imports & prefix checks.
Michael J. Wilson
committed
revert imports in calicost supervised.
Michael J. Wilson
committed
revert import for hmm_nophasing
Michael J. Wilson
committed
revert imports for hmm_NB_BB_nophasing_v2
Michael J. Wilson
committed
revert imports for hmm phaseswitch
Michael J. Wilson
committed
revert imports for hmrf
Michael J. Wilson
committed
revert imports for utils IO.
Michael J. Wilson
committed
revert imports for utils hmm
Michael J. Wilson
committed
revert imports for distribution fitting.
Michael J. Wilson
committed
add utils hmm njit import
Michael J. Wilson
committed
fix calicost supervised imports.
Michael J. Wilson
committed
fix runtime logging.
Michael J. Wilson
committed
import bug
Michael J. Wilson
committed
fix spelling mistake
Michael J. Wilson
committed
log comparative likelihoods.
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
fix
Michael J. Wilson
committed

Commits on Aug 16, 2024

improve runtime logging
Michael J. Wilson
committed
update utils hmm logging to show n spots.
Michael J. Wilson
committed
fix logging error from multiple args
Michael J. Wilson
committed
fix typo in hmrf logging
Michael J. Wilson
committed
update logging strings.
Michael J. Wilson
committed
logging edits
Michael J. Wilson
committed
log hmrfmix_reassignment_posterior_concatenate.
Michael J. Wilson
committed
more logging improvements. remove deprecated code.
Michael J. Wilson
committed
add use defaults statement
Michael J. Wilson
committed
edit logging for ARI and bb diff.
Michael J. Wilson
committed
log neyman pearson.
Michael J. Wilson
committed
improved logging.
Michael J. Wilson
committed
update logging.
Michael J. Wilson
committed
update logging
Michael J. Wilson
committed
improve logging
Michael J. Wilson
committed
improved logging
Michael J. Wilson
committed
fix logging
Michael J. Wilson
committed
edit logging
Michael J. Wilson
committed
fix logging
Michael J. Wilson
committed
fix logging
Michael J. Wilson
committed
fix bugs
Michael J. Wilson
committed

Commits on Aug 17, 2024

fix bugs
Michael J. Wilson
committed
fix
Michael J. Wilson
committed

Commits on Aug 18, 2024

logging fixes
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
add Baum-Welch log lines.
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
fix logging.
Michael J. Wilson
committed
log bandwidth
Michael J. Wilson
committed
fix logging
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
fix logging
Michael J. Wilson
committed
fix logging bug
Michael J. Wilson
committed
add TODO for gammas in phasing beta binomial
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
add hmrf logging
Michael J. Wilson
committed
add cpas
Michael J. Wilson
committed

Commits on Aug 19, 2024

log phasing baum welch.
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
log initial alpha and tau
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
fix
Michael J. Wilson
committed

Commits on Aug 20, 2024

write Weighted Beta Binom chain file
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
finishing touches
Michael J. Wilson
committed

Commits on Aug 26, 2024

ABC for emission models
Michael J. Wilson
committed
abc for emission models
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
fixes
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
fix chain logging
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
gzip chains
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
update instance counts.
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
cleanup before adding ARI for HMM states.
Michael J. Wilson
committed
precision on likelihood chain
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
add HMM ARI
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
make parent dirs for chains
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
add hamming distances
Michael J. Wilson
committed
fixes
Michael J. Wilson
committed
add # of states for hamming.
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
fix increment bug.
Michael J. Wilson
committed
fix
Michael J. Wilson
committed
Merge pull request #10 from michaelJwilson/main_logged_verbose_abc
Congm12
authored

Commits on Sep 2, 2024

remove examples
Cong Ma
committed