Age | Commit message (Collapse) | Author | Files | Lines |
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Static documentation rebuilt by pkgdown
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Static documentation rebuilt by pkgdown
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mkinfit objects now include an ll() function to calculate the
log-likelihood. Part of the code was refactored, hopefully making it
easier to read and maintain. IRLS is currently the default algorithm for
the error model "obs", for no particular reason. This may be subject
to change when I get around to investigate.
Slow tests are now in a separate subdirectory and will probably
only be run by my own Makefile target.
Formatting of test logs is improved.
Roundtripping error model parameters works with a precision of 10% when
we use lots of replicates in the synthetic data (see slow tests). This
is not new in this commit, but as I think it is reasonable this
closes #7.
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that I made in the first attempt to work around the issue with the %in%
operator in the example code
Static documentation rebuilt by pkgdown
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Use lazy = TRUE in the pd target for generating pkgdown documentation
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as it leads to problems with current pkgdown versions r-lib/pkgdown#1149
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- Reconcile docs and code for max_twa_parent
- Correct links to docs in twa vignette
- Static documentation rebuilt by pkgdown
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Address winbuilder check problems, update check log, update of static docs
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The new algorithm tries direct optimization of the likelihood, as well
as a three step procedure. In this way, we consistently get the
model with the highest likelihood for SFO, DFOP and HS for all 12
new test datasets.
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in relation to the original version by Rocke and Lorenzato
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by plotting squared residuals against predicted values, and
showing the variance function used in the fitted error model.
Rebuild docs
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- Skip long running tests on CRAN as well to avoid timeout on winbuilder
- Don't install benchmark results in the package, they are only needed
in the git repository
- Don't run example in man/add_err.Rd as it takes > 10 s on winbuilder
- Rebuild docs
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- Also make it possible to specify initial values for error model
parameters.
- Run tests
- Rebuild docs
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- Write the NEWS
- Static documentation rebuilt by pkgdown
- Adapt mkinerrmin
- Fix (hopefully all) remaining problems in mkinfit
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- No IRLS required
- Removed optimization algorithms other than Port
- Removed the dependency on FME
- Fitting the error model 'obs' is much faster for the FOCUS_2006_D
dataset and the FOMC_SFO model (1 second versus 3.4 seconds)
- Vignettes build slower. Compiled models needs 3 minutes instead of 1.5
- For other vignettes, the trend is less clear. Some fits are faster,
even for error_model = "const". FOCUS_Z is faster (34.9 s versus
44.1 s)
- Standard errors and confidence intervals are slightly smaller
- Removed code for plotting during the fit, as I hardly ever used it
- Merged the two cost functions (using transformed and untransformed
parameters) into one log-likelihood function
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In order to avoid some unnecessary documentation rebuilds
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Static documentation rebuilt by pkgdown
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Also:
- Change rounding in print.nafta
- Add dots argument to nafta()
- Use cores=1 in examples
- Restrict N in IORE model to values > 0
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- Make mmkin compatible
- Return DT50 values corresponding to k0 and kmax
- Turn incompatible parameter names in parms.ini from an error to a
warning, in order to make it possible to use this argument in calls to
mmkin
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Add NEWS entry. Static documentation rebuilt by pkgdown
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Static documentation rebuilt by pkgdown
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Static documentation rebuilt by pkgdown
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Static documentation rebuilt by pkgdown
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Further relax two tests to pass build on Travis
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to avoid NOTES about long execution times.
Static documentation rebuilt by pkgdown with run_dont_run = TRUE
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Also improve the irls fitting of the error model and add a test
for FOCUS_2006_C where the second component of the error model is zero
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Rename 'sigma_rl' to 'sigma_twocomp' as the Rocke and Lorenzato model assumes lognormal distribution for large y.
Rebuild static documentation.
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Rebuild pkgdown reference
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