Remove unused icc makefile.
add PRIORS_SECTION, LIKELIHOODS_SECTION for regular admb and admb RE, also add current_feval() for Mollie's request Feature#10
Fix union, logistic and caest examples for the macos-32bit.
add priors_section for random effect on priors branch for testing
Fixes commandline behavior in windows shell.
Add license to contrib header.
Remove binomial_w2 from benchmarks outputs.
Ignore union errors for now.
Use M_PI instead of PI.
Create ecolib.h header and included them in source files that were missing the functions.
Allow nbmm to compile for unix.
Added build files for contributed libraries.To use:$ make --directory=scripts/configure$ ./configure$ make$ make contrib
typo in dnbinom_eco
added dnbinom_ecoand dnbinom_eco_zi functions separate from dnbinom because they are parametarized differently, the parmetarization most often used by ecologists. _zi stands for zero inflated
removed vectorized and random effects versions
added vectorized and random effects versions of dnbinom
added vectorized versions to dgamma
Should catch errors for union.
Opps...Fix broken builds from previous commit. Forgot to include header.
Fix union example segmentation problem.
Modified dnbinom.cpp due to potential bug that Mollie Brooks pointed out. THANKS MB!
changed qfc to QFC in Doxyfile
overload likelihood functions for random effect, and change the format, the old one from VC++ editor looks not good in redmine.
add two new files created by Dave for df1b2variable - double and its reverse form
user contribute library from weihai, some useful functions for doing simulation in admb and overloaded functions of negative log likelihood for some distributions
checkout from http should be readonly.
Add ecolib to doxygen config.
Added likelihood wrapper source file like.cpp and included in priors.lib build
Minor typos in makefiles
This update adds the statslib library by Steve Martell. The functions in this library are used for PRIORS_SECTION and LIKELIHOOD_SECTION libraries.
This update includes priorslib library code and makefile changes to implement PRIORS_SECTION.
added ecolib, including templates and tests
Lexer now scans PRIORS_SECTION and LIKELIHOOD_SECTION and allows C++ code in both. It also prepends 'prior_' or 'like_' to the function names after the 'disributed as' operator ~ for the respective sections. The functions will be included in the contrib directory as libraries which will be wrappers for the statslib library which is also in the contrib directory. The makefiles will be modified to link to these libraries. CG & WL
changes to dox for Weihai
Scanner prior name (prior_name) and definition (prior_def) regular expressions now allow for whitespace around the tilde. Also a prior on a function call can now be defined, i.e. log(q) ~ dnorm(0,1). Also some changes by Weihai: "Most updates are in the define_prior, it allow users having any spaces around ~, and around their argument lists, I also setup the distribution mirror link there, not sure if that is the right way to go, which also need another user defined function see trim() at the end of file. See my attached rat example, which based on Mark's example converting winbugs to admb, first model on winbugs examples....
Update to Doxyfile with help info for contrib/statslib
Contributed libraries from Steve Martell --directory contrib/statslib
duplicate declaration of "double lgam(double x)" in df13tester.cpp and in cgamdev.cpp. Commented out lines 942-1049 in df13tester.cpp
changes to mod_hess.cpp and model7.cpp
Removed duplicate double lgam(double) function from df13incbet.cpp
Fix for lgam bug on the mac os. Removed duplicate symboles and consolidated to df11fun.* files. Removed df1fun.* files. Removed copy commands from the makefiles.
change 81 to 101 cmpdif_file_name in fvar.hpp
added contributed libraries to modules; streamlined INPUT section of Doxygile
clean compile on Dave's patches; errors in adcomp and catage example
Move glmmADMB folder because it conflicts with admb script.
Started adding library functions for PRIORS_SECTION. Also set up distribution library build objects for each platform. Added an example in the examples folder called simple-priors.
clean script for use while developing
Remove hard coded paths
Sandbox GPU development.
PRIORS_SECTION implementation. Lexer only at this point.
Add support for Oracle Solaris Studio 12.
Sandbox parallel development.
Sandbox priors development.
Update borland installer config.
Update vc build folder.
Fix borland 5.5 builds.
Be able to verify with different ADMB_HOME paths.
Add binary installation procedure for macos.
Really fix glmmadmb vc build.
Add fix for glmmadmb vc build contributed by Ben Bolker.
Update ADMB version control URL.
Add support for MinGW 5.2
Add glmmadmb to examples.
Workaround for Intel compiler, use safe code instead of opt for a few functions.
Update Intel build procedure and version number to 10.1.
Fix Intel build by adding another character type to adstring::operator+.
fixed small typo in README.txt
Add place for user contributed files.
added dox for dvariable and related classes
Replace 'std dev' with 'std.dev' in manuals and examples
Write out 'std.dev' instead of 'std dev' in *.cor and *.std files
Define 'sumsq' as alias of 'norm2'
Added matrix exponential for df1b2matrix
dmatrix version of matrix exponential expm
fix PI compile error in cgamdev.cpp
documented negative binomial density functions
Replace 3.14159* with PI everywhere
Define PI (and M_PI) in fvar.hpp
changes to Doxyfile and dox Makefile
Fix warnings in tpl2cpp.lex and tpl2rem.lex
undo of revision 37
Simplify and comment CXXFLAGS and LDFLAGS in adcomp, adlink, and admb
Remove old scripts.
Remove unused file.
Fix scripts to pass CXXFLAGS and LDFLAGS to adcomp and adlink.
Add missing step in README.txt.
removed duplicate gammln function. prevariable version instead of dvariable version.
Don't force build hs_sparse.cpp.
Add Mollie Brooks suggestion for MacOS users.
doc for dvar sum and *
dox for RETURN_ARRAYS...
doc for min max og dvar_vector
Added test case expm
Fix the flex builds.
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