Revision c0cc48c3328d0a7ea990cf43c01fb3b08c0b0c24 authored by Marios Papachristou on 17 July 2020, 07:44:29 UTC, committed by GitHub on 17 July 2020, 07:44:29 UTC
* Initialize report * Add solvers file * WIP: Add Euler ODE Solver * WIP: Add Euler Method * Add boundary reflections to Euler * Fix boundary reflections * Add test for ODE dx/dt = -x for Euler Method * Add test for dx/dt = x in [0, 1] * Add is_in for multiple reflections * Add normalize flag to get_direction * Minor modifications * WIP: Add HMC for log-concave densities * Add tests for HMC * Add details to README * Add tests for leapfrog method * Add leapfrog method * Add HMC and HMC tests * Separate Euler and Leapfrog * Remove ode_solvers.h * Refactor solver implementations 1. Move solvers to separate file 2. Fix includes. The ode_solvers.h base file includes the rest of the solvers and is respon- sible for doing the correct includes. * Add RK methods header file * WIP: Add generic RK methods * Implement RK methods with testing * Add collocation method header files * Fix bug in RK methods * WIP: Collocation method constructors * WIP: Implement collocation method * Add root_finders header file * Add CHECK() statements and fix minor bugs * Bug fix for boundary oracle * Add CHEK() for constrained leapfrog * Add Newton-Raphson method for root finding * Add return statement * Add notice * Add regularization (smoothing) and max_iters * Add const where needed * Add BS method * Add Bulirsch-Stoer implementation * Add Bulirsch-Stoer implementation * Add constrained BS method * WIP: Debug collocation method * WIP: Debug collocation method * Add rational fcn and grad of rational fcn functors * WIP: Add testcase for collocation methods * Fix BS method * Minor changes * Add resources to ODE solvers * Initialize curve_intersect for Hpoly * WIP: Boundary oracles * WIP: Boundary oracles * WIP: Boundary oracles * WIP: Boundary oracles * WIP: Boundary oracles * WIP: Add isinf for well-posedness of denominator in NR * Move func template one level above (for ULD to work later) * Initialize boundary oracles test * Add boundary oracle test CMake targets * Initialize boundary oracles tests * Working boundary oracle for H-polytope 1. Uses Newton-Raphson for solving transcendental equations 2. Can find multiple/one root 3. Tests are implemented for the curves (t, t) and (t, 2t^2) * Initialize NLP oracles (general curve w/ polytope) * Finish boundary oracle tests for H-polytope * Add ifopt and ipopt to CMakeLists.txt * Add wrapper function for nlp oracles * Working nlp H-polyoracle * Rename nlp polyoracles to avoid confusion with lp oracles * Remove old polyoracles file * Document NLP hpolyoracles * Minor refactoring * Add wrapper function * WIP: Initialize NLP oracle for V-polytope * Update readme with GSoC information * Add benchmarks with random polynomials * Modify membership condition * Restrain test to t only * Bug fixes * Code cleanup * Move to old commit (before merge) * Merge ode solvers * Rename testcases * Merge root finders test * Move hmc to sampling/ directory * Partial fix for V polyoracles with ipopt * Fix linear collocation method * Fix collocation with approximate computation * Improve README file * Add precomputation flag * Improve NR solver * Add central method for curve_intersect * Change return type of nlp vpolyoracle to return dummy facet * WIP: Integrate boundary oracles to collocation * Fix collocation method boundary oracles (w/ tests) * Bug fixes * Add mpsolve and gmp to CMakeLists.txt * Implement mpsolve wrapper * WIP: Integrate mpsolve * Fix preprocessor directives * Add boundary oracle with mpsolve * Fix minor issues * Fix existing working tests * Add min_pos optimization problem * WIP: Minor changes in way of reflection * Remove hmc sampler temporarily (move it to temp branch) * Fix reflections * Add dependencies(mpsolve, ipopt/ifopt) to CircleCI * Fix config * Fix config * Fix config * Add dependency at circleci config * Add dependency at circleci config * Add dependency at circleci config * Add dependency at circleci config * Add dependency at circleci config * Add root finders test * Minor fixes in boundary oracles * Fix bounded collocation * Typo fix * Add missing test to cmakelists * Add #undef where it is needed * Remove extraneous dynamic linking * Fix erroneous flag * Remove hmc tests (moved to other branch) * Update clang and g++ workflows * Fix failing R tests * Fix failing R tests * Split checking for ubuntu/macOS * Remove misplaced if statement * Add CMAKE_CXX_COMPILER flag to ifopt * Correct test name * Remove sudo in front of brew cmd * Add automake dependency * Change error_on from "warning" to "error" * Add preprocessor directive to disable NLP oracles * Add flag for disabling oracles * Add macro definitions for disabling oracles * Add windows workflow * Modify windows workflow * Change Makevars.win * Change Makevars.win * Change Makevars.win * Disable NLP oracles to all tests * Modify circleci build * Modify circleci build * Add preprocessor directive * Remove report * Remove GSoC details * Move macro * Remove unused typedefs * Modify copyright notices * Fix typo * Rename rk.h to runge_kutta.hpp * Minor correction * Rename .h to .hpp in ODE solvers * Rename nlp oracles from .h to .hpp * Rename root finders * Remove duplicate include * Reorder #include directives * Refactoring * Rename file * Add velocity reflections * Remove extraneous constructors * Add general docs for solvers * Temp refactoring * Fix minor bugs * Remove flag from richardson implementation * Add facet ignore * Finish oracles refactoring * Consistent copyright notices * Add accidentally removed templates * Consistent copyright notices * Add nlp_oracles.hpp main header file * Minor modifications * Change variable name from oracle to intersection_oracle * Remove unused file * Add higher-order reflections * Add missing ignore_facet * Wrap long lines * Remove print statement * Impose sticky boundary conditions for collocation * Impose sticky boundary conditions for collocation * WIP: Add integral collocation method class prototype * Delete integral_collocation.hpp * Modifications to collocation method * Iteratively solve non-linear equations * Fix bugs * Minor modifications to test routines * Optimize function oracles * Comment for future work * Minor changes * Remove comments from yaml * Restore README * Restore README
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CODE_OF_CONDUCT.md
# Contributor Covenant Code of Conduct
## Our Pledge
In the interest of fostering an open and welcoming environment, we as
contributors and maintainers pledge to making participation in our project and
our community a harassment-free experience for everyone, regardless of age, body
size, disability, ethnicity, sex characteristics, gender identity and expression,
level of experience, education, socio-economic status, nationality, personal
appearance, race, religion, or sexual identity and orientation.
## Our Standards
Examples of behavior that contributes to creating a positive environment
include:
* Using welcoming and inclusive language
* Being respectful of differing viewpoints and experiences
* Gracefully accepting constructive criticism
* Focusing on what is best for the community
* Showing empathy towards other community members
Examples of unacceptable behavior by participants include:
* The use of sexualized language or imagery and unwelcome sexual attention or
advances
* Trolling, insulting/derogatory comments, and personal or political attacks
* Public or private harassment
* Publishing others' private information, such as a physical or electronic
address, without explicit permission
* Other conduct which could reasonably be considered inappropriate in a
professional setting
## Our Responsibilities
Project maintainers are responsible for clarifying the standards of acceptable
behavior and are expected to take appropriate and fair corrective action in
response to any instances of unacceptable behavior.
Project maintainers have the right and responsibility to remove, edit, or
reject comments, commits, code, wiki edits, issues, and other contributions
that are not aligned to this Code of Conduct, or to ban temporarily or
permanently any contributor for other behaviors that they deem inappropriate,
threatening, offensive, or harmful.
## Scope
This Code of Conduct applies both within project spaces and in public spaces
when an individual is representing the project or its community. Examples of
representing a project or community include using an official project e-mail
address, posting via an official social media account, or acting as an appointed
representative at an online or offline event. Representation of a project may be
further defined and clarified by project maintainers.
## Enforcement
Instances of abusive, harassing, or otherwise unacceptable behavior may be
reported by contacting the project team at geomscale@gmail.com. All
complaints will be reviewed and investigated and will result in a response that
is deemed necessary and appropriate to the circumstances. The project team is
obligated to maintain confidentiality with regard to the reporter of an incident.
Further details of specific enforcement policies may be posted separately.
Project maintainers who do not follow or enforce the Code of Conduct in good
faith may face temporary or permanent repercussions as determined by other
members of the project's leadership.
## Attribution
This Code of Conduct is adapted from the [Contributor Covenant][homepage], version 1.4,
available at https://www.contributor-covenant.org/version/1/4/code-of-conduct.html
[homepage]: https://www.contributor-covenant.org
For answers to common questions about this code of conduct, see
https://www.contributor-covenant.org/faq
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