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ChangeLog
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ChangeLog
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2024-07-07 Wenjie Wang <wang@wwenjie.org>
* Fixed CRAN warning: "template-id not allowed for constructor in
C++20".
* Changed package version to 0.4-7.
2023-11-27 Wenjie Wang <wang@wwenjie.org>
* Fixed CRAN warning: "GibbsSampler.h:91:27: warning: format ‘%d’
expects argument of type ‘int’, but argument 2 has type ‘Size’".
* Changed package version to 0.4-6.
2023-08-19 Wenjie Wang <wang@wwenjie.org>
* Fixed broken roxygen2 documentation.
* Changed package version to 0.4-5.
2023-04-28 Wenjie Wang <wang@wwenjie.org>
* Fixed CRAN warning: "a function declaration without a
prototype is deprecated in all versions of C [-Wstrict-prototypes]".
* Changed package version to 0.4-4.
2022-02-15 Wenjie Wang <wang@wwenjie.org>
* Fixed `coef` method for `splineCox`
* Changed package version to 0.4-3.
2020-09-05 Wenjie Wang <wang@wwenjie.org>
* Removed checks of examples to pass CRAN checks on Soloris.
* Changed package version to 0.4-2.
2020-08-23 Wenjie Wang <wang@wwenjie.org>
* Added function `bayesCoxMcmc` for extracting MCMC samples from a
given `bayesCox` object.
* Added default `out` in function `bayesCox` to a temporary
directory.
* Fixed default grid generation for some cases.
* Removed argument `cache` from function `survCurve` and
`survDiff`.
* Removed package dependency reshape, plyr, and utils
* Added package dependency data.table and splines2
* Changed package version to 0.4-1.
2019-08-27 Wenjie Wang <wenjie.2.wang@uconn.edu>
* Fixed call of `<=` in function `tvTran`.
* Changed package version to 0.3-7.
2017-11-14 Wenjie Wang <wenjie.2.wang@uconn.edu>
* Added exact event times to the grid.
* Fixed the dependency of the whole survival package by importing
the survival package and exporting the function `survival::Surv`.
* Changed package version to 0.3-6.
2017-01-08 Wenjie Wang <wenjie.2.wang@uconn.edu>
* Added adjustment for endpoints of censoring intervals from `grid`
specified in the function call of `bayesCox`.
* Added compatibility of function `survCurve` to all available
models from function `bayesCox`.
* Changed package version to 0.3-5.
2016-12-24 Wenjie Wang <wenjie.2.wang@uconn.edu>
* Added the generation of `grid` from the data provided, which
allow `grid` to be unspecified in the function call of `bayesCox`.
* Changed package version to 0.3-4.
2016-10-14 Wenjie Wang <wenjie.2.wang@uconn.edu>
* Fixed compilation error in Solaris: "The function `exp` must
have a prototype" by replacing `exp` with `std::exp`.
* Fixed possibly invalid URL for tooth24.RData.
* Changed CRAN URL into the canonical form.
* Changed package version to 0.3-3.
2016-08-30 Wenjie Wang <wenjie.2.wang@uconn.edu>
* Fixed warning on compilation flags in Makevars: "Non-portable
flags in variable 'PKG_CXXFLAGS': -g" by removal of "-g" flag.
* Fixed invalid URL for tooth24.RData.
* Changed package version to 0.3-2.
2016-07-12 Wenjie Wang <wenjie.2.wang@uconn.edu>
* Fixed compiling error from clang v3.9 due to including R headers
inside extern "C" by commenting out the extern "C" in rng.h and
GibbsSampler.h.
* Fixed print function for `bayesCox` object.
* Fixed invalid url for tooth dataset.
* Added formula and xlevels to `bayesCox` object.
* Added optional arguement to `coef.bayesCox`, `coef.tvTran`, and
`coef.splineCox` to allow user to specify credible level by
matching "..." argument with possible "level" argument.
* Added function `survCuvre`, `survDiff`, and `plotSurv` to
estimate and plot the survival function, cumulative hazard
function, and their pair difference for Bayesian dynamic model
with dynamic hazard from posterior sample. Specific examples are
added to `bayesCox`.
* Added Roxygen2 inline documentation for all exported function.
* Added citation for package to /inst.
* Removed redundant COPYRIGHT file bundled in source package. It
is available online at <http://www.gnu.org/licenses/>.
* Changed package version to 0.3-0.
* Changed maintainer from Jun Yan to Wenjie Wang.
2014-05-01 Jun Yan <jun.yan@uconn.edu>
* Changed the dependence on boost to package BH.
2014-04-10 Jun Yan <jun.yan@uconn.edu>
* Fixed compiling error from clang in thg constructor LogDenPar:
changed this->N to static_cast<int> (this->N_).
* Fixed warnings from clang in arm.c by commenting out the
display function. Added random number state control to u_random.
2014-03-04 Jun Yan <jun.yan@uconn.edu>
* Fixed the problem that splineCox did not work with a single
covariate by adding drop=FALSE in splineCox:
DF <- cbind(id=1:N, mf[, 1][, 1:2], mf[, -1, drop=FALSE])
* Changed depends to import in DESCRIPTION and NAMESPACE.
However, package survival is kept under "Depends"; otherwise,
function Surv was not found in model.matrix. This may need
to be fixed later.
* Modified example codes to use mydata and myformula instead of
data and formula.
2012-03-14 Jun Yan <jun.yan@uconn.edu>
* Removed tiCox.h and tiCox.cpp. Functions there are covered
by bayesCox.
* Cleaned the style of the code under src with astyle -s2.
2012-03-10 Jun Yan <jun.yan@uconn.edu>
* Added system dependence on the boost library, which allows
removal of the boost headers files from the src directory.
The configure.ac file was adapted from that in package
RQuantLib; thank Dirk Eddelbuettel <edd@debian.org>.
* Removed std:cout lines (Xiaojing Wang).
* Replaced exit with return whenever possible. May need
more fix later.