Uedge

Merges Lithium sputtering module into the development branch.

What's Changed
* Removing cell crossing near the X-point for a HFS 1D flux tube by ganjinzero1 in https://github.com/LLNL/UEDGE/pull/71
* Minor tidying by bendudson in https://github.com/LLNL/UEDGE/pull/73
* Introduces pyproject.toml, adds wheel build jobs to workflow, makes isfniycbozero more flexible by holm10 in https://github.com/LLNL/UEDGE/pull/77
* Make Checkver more resilient to failures by bendudson in https://github.com/LLNL/UEDGE/pull/82
* Merging Lithium sputtering developments into develop branch by holm10 in https://github.com/LLNL/UEDGE/pull/87


**Full Changelog**: https://github.com/LLNL/UEDGE/compare/v8.0.6-beta.2...v8.1.2-beta.0

v8.1.1-patch.0
- Adds fniycbo options via isfniycbozero
- Makes fniycbo-switch index-dependent
- Fixes switch for double-null geometries
- Hardens checkver to allow code execution without connection to PyPi
- Implemements build and install using pyproject.toml
- Updates Workflows to ensure compatibility of Forhton with numpy>2.0

v8.1.0-patch.1
Updates build and install to use pyproject.toml
Adds fixes to GitHub Workflows to account ensure Forthon compatibility with numpy>2.0

v8.1.0-patch.0
What's Changed
* Removing cell crossing near the X-point for a HFS 1D flux tube by ganjinzero1 in https://github.com/LLNL/UEDGE/pull/71
* Minor tidying by bendudson in https://github.com/LLNL/UEDGE/pull/73
* Updates UEDGE to V8.1.0.0 by holm10 in https://github.com/LLNL/UEDGE/pull/72
* Adds broader output supression via com.iprint by holm10 in https://github.com/LLNL/UEDGE/pull/65
* Merging Tg into the LLNL/develop by ganjinzero1 in https://github.com/LLNL/UEDGE/pull/62
* Albedo pumping bugfix by holm10 in https://github.com/LLNL/UEDGE/pull/67
* Removing override by holm10 in https://github.com/LLNL/UEDGE/pull/68
* Adds controls for fniycbo, the core drift currents by holm10 in https://github.com/LLNL/UEDGE/pull/70
* Improves the uedge.hdf5 scripts to recognize more save formats, only look for restore-variables present in the source code
* Automatically updates bbb.uedge_ver on Python startup to match the Python UEDGE version
* Makes switch for previous bugfix oldseec gradual to allow gradually transitioning between models
* Removes Pytests, as these are run from the separate pytests branch
* Updates test workflow to reflect changes made to testing
* Changes default plate albedo pumping model to use angle-corrected areas (isoldalbarea=0)
* Changes default joule heating model to include radial Te gradients (oldseec=0)

**Full Changelog**: https://github.com/LLNL/UEDGE/compare/v8.0.6-beta.2...v8.1.0-patch.0

What's Changed
* Update develop to correspond to UEDGE v8.0.5-patch.0 by holm10 in https://github.com/LLNL/UEDGE/pull/55
* Adds broader output supression via com.iprint by holm10 in https://github.com/LLNL/UEDGE/pull/65
* Merging Tg into the LLNL/develop by ganjinzero1 in https://github.com/LLNL/UEDGE/pull/62
* Albedo pumping bugfix by holm10 in https://github.com/LLNL/UEDGE/pull/67
* Removing override by holm10 in https://github.com/LLNL/UEDGE/pull/68
* Adds controls for fniycbo, the core drift currents by holm10 in https://github.com/LLNL/UEDGE/pull/70
* Improves the uedge.hdf5 scripts to recognize more save formats, only look for restore-variables present in the source code
* Automatically updates bbb.uedge_ver on Python startup to match the Python UEDGE version
* Makes switch for previous bugfix oldseec gradual to allow gradually transitioning between models

**Full Changelog**: https://github.com/LLNL/UEDGE/compare/8.0.5-patch.0...v8.0.6-beta.2

8.0.5-patch.0
Includes revisions from develop.

What's Changed
* Variable tags by holm10 in https://github.com/LLNL/UEDGE/pull/46
* Removing duplicate variable definitions in several packages by holm10 in https://github.com/LLNL/UEDGE/pull/24
* Jouleheating bugfix by holm10 in https://github.com/LLNL/UEDGE/pull/52
* Initial implementation of continuation solve by holm10 in https://github.com/LLNL/UEDGE/pull/50
* Update UEDGE to v8.0.5-patch.0 by holm10 in https://github.com/LLNL/UEDGE/pull/54

Notes on Joule heating bug
[uedge_elec_eqn_2.pdf](https://github.com/LLNL/UEDGE/files/13290320/uedge_elec_eqn_2.pdf)

Full changelog
https://github.com/LLNL/UEDGE/compare/8.0.4-patch.1...8.0.5-patch.0

Changes implemented include:
- Removes obsolete pyscripts
- Implements Joule heating bugfix and warnings to use new model
- Implements the newest version of the continuation solver and rundt

Release including most recent PRs:
- Removes duplicate variables in UEDGE
- Adds tags to input and grid generation variables

What's Changed
* Implementing HDF5 grid files for UEDGE by holm10 in https://github.com/LLNL/UEDGE/pull/23


**Full Changelog**: https://github.com/LLNL/UEDGE/compare/v8.0.4-patch.0...8.0.5-beta.0

8.0.4-patch.1
Fixed grid generation bug implemented in commit 82f5f64.
Bug affected grid generation when adding cells around the X-point (nxxpt>0).
No impact on steady state solutions.

- Non-base 1 array pointers were uniquely passed to subroutine intersect2.
- Originally implemented as cray pointers, which used to cause warnings but was escalated to errors.
- During updating passing to be compatible, non-base 1 array resulted in error.
- Updated to explicitly define shape of passed arrays.

v8.0.4-patch.0
Fixed bug in neutral viscosity loop

Do loop ended at radial index ny rather than ny+1
Changes affect the Jacobian calculation
Does not affect the full RHS evaluation
Bug should not affect the steady-state solution
Bugfix should improve convergence behavior to steady-state

Advanced version to 8.0.4-patch0 as a precaution: converged fnorms may change after updating, negligible impact on steady-state solution expected

Consolidated changes from development branch.

Changelog:
- Removed internal routine bbb.rundt
- Version no longer supported, superseded by uedge.rundt
- Added trackers/flags required by UEDGE Toolbox
- Fixed minor bug in displaying troublemaker bins in uedge.rundt.failureanalysis
- Fixed test functionality using new default recycm values