NEWS.md

In Colossus: "Risk Model Regression and Analysis with Complex Non-Linear Models"

Colossus 0.9

• Added a NEWS.md file to track changes to the package.

Colossus 1.0.0

• Initial submission
• C++ code modified to not apply OpenMP code if OpenMP isn't detected, to resolve MacOS installation failures

Colossus 1.0.1

• Configuration improved to detect compiler information
• Linux configuration depends on the system wide c++ default and the compiler used to compile R
• OpenMP support is not used if the c++ default or the R compiler is clang

Colossus 1.0.2

• utility checks updated to check that keep_constant is 0/1 values
• code will fail if keep_constant is not integer valued and 0/1, with explanation of why

Colossus 1.0.3

• configuration script libraries moved from Suggested: to Imports:
• configuration script functions moved to non-exported functions in Colossus, circumvents note about imported libraries not being used and may be later used to provide the user with a function that informs them of why OpenMP is/isn't supported

Colossus 1.0.4

• utility checks updated to check term numbers and subterm types in R side
• code will fail if term numbers are not integers, term numbers are missing, or subterm types are

Colossus 1.0.5

• compilation flags changed to macros

Colossus 1.1.0

• Default Makevars is now fully portable
• By default only windows uses OpenMP now
• The GitHub version will include instructions on activating configuration to use OpenMP on gcc Linux

Colossus 1.1.1

• ggplot2 no longer required, now optional
• additional testing added for coverage
• default Makevars added via bash script

Colossus 1.1.2

• Log-likelihood bound functionality added
• subject to usual convergence issues, manual search option

Colossus 1.1.3

• Cox regression now removes rows that end before first event and start after last event
• Cox regression now sets constant rows to be constant, helps with aliasing
• Tests now use sink() to avoid printing as much excessive output to console. Tests now consolidated further.

Colossus 1.1.4.1

• Cox plotting functions now return the tables used for plots (only last plot table returned)
• Plotting vignette updated to include more details and plots
• survival package listed as suggested for plotting vignette

Colossus 1.1.4.2

• R errors and warnings sent to stop() and warning(). C++ errors and warnings still controlled by verbosity argument
• ggsave defaults to width/height = 7
• Updates started to fix possible OpenMP issues with fedora 36 running clang 18
• Unable to have debug printing as an option and cover the c++ files with testing, but still have test output be readable. debug output removed.

Colossus 1.1.5

• Started adding simplifications to allow for faster iterations
• Added simplification for linear ERR model
• Started gradient descent code
• Started external rate comparison options
• Added person-count and person-time table generation code and vignette

Colossus 1.1.5.5

• Added CoxCurveSolver function to solve likelihood boundaries via bisection method

Colossus 1.1.6

• MacOS testing with OpenMP finished. MacOS use with OpenMP officially checked.
• By default the only systems that is forced to use single thread is linux using clang. This can be turned off by setting the "R_COLOSSUS_NOT_CRAN" environment variable.

Colossus 1.1.7

• Gradient descent algorithms tested further and presented in vignette
• Multiple realization function tested further

Colossus 1.1.8

• CurveSolve functions converted to c++ functions
• Testing scaled back to take up less time

Colossus 1.1.9

• Cox based functions switched covariance matrix calculation from negative inverse of log-likelihood second derivative, to expected information matrix.

Colossus 1.1.10

• Cox based functions updated to improve speed
• Additional CurveSolve output provided to give final window width and final step

Colossus 1.2

• Both Cox and Poisson functions now all return the expected information matrix derived covariance

Colossus 1.2.1

• Matched Case-Control base code and equation vignette added

Colossus 1.2.2

• Additional code cleanup and minor utility function speed improvements

Colossus 1.3.0

• Multiple realization code updated to improve speed
• lingering debugging variables removed: fir and der_iden

Colossus documentation built on June 8, 2025, 1:10 p.m.