Complete syntax parsing rework to preserve user formatting. - [merged]

[MicahGale]

Merges 48-add-support-for-keeping-comments -> alpha-test

Tests to add:

1. [ ] test tab expansion.
2. [ ] Test SC and FC tally comments
3. [ ] Ensure comments get placed with following object.
4. [ ] Clear out all TODO comments.
5. [ ] Clean up code and refactor.
6. [ ] Update all documentation.
7. [ ] Can I delete allowed_keywords?

[MicahGale]

added 5 commits

• d5e3da9b - allowed n-depth subclassing with meta class
• 448998c4 - Added dataparser as base class
• 94646dcc - Added int option for a value node
• 5600d66f - Actually parsed information into data at parse layer for data inputs
• 184c50b1 - Started removing old data type parsing code

Compare with previous version

[MicahGale]

added 1 commit

• 6a252212 - Hid internal variables like has_classifier from end users

Compare with previous version

[MicahGale]

added 7 commits

• 532d66d5 - Adding parsing support for data modifiers
• bddfd253 - Switched data inputs parsing to SLY
• 2e1f2fb7 - Fixed bugs with finding if keyword in match
• 86324344 - Allowed data prefixes to be keywords
• 234a2743 - Made it so cell is fully initialized prior to parsing failing
• 24b4a65e - Fixed bugs with data input init
• e49855aa - Fixed bad syntax with test cell

Compare with previous version

[MicahGale]

added 3 commits

• 8ae7d80d - Cleaned up old debugging code
• 6f54f61a - added keywords for volume
• 565ee9c6 - Worked on implemented shortcut expansions

Compare with previous version

[MicahGale]

added 6 commits

• c5ac0c20 - Made identifier phrase that parses value as an int
• cc866130 - Made value node value settable
• 4d1c2799 - Went so meta programming.
• 75434da3 - Made meta property for pointer properties
• 99e1edbd - Implemented some meta property use
• deef0572 - Saved value nodes instead of values in cell

Compare with previous version

[MicahGale]

added 4 commits

• 853db81f - Fixed typo
• abe2ed7e - Fixed how density data are accessed, and fixed accidental mutation
• a063c006 - Made simple classifier parser to parse throwaway data inputs without getting into details
• 01d7d163 - Moved property metaprogramming to utilities functions

Compare with previous version

[MicahGale]

added 4 commits

• 4e92dbad - Made parameters parser more robust
• e592df75 - Allowed shortcut number sequences to get put in parent number sequence
• f8f565c0 - Finished parsing all shortcuts
• 4d612560 - Made it so that shortcut nodes don't dissapear

Compare with previous version

[MicahGale]

added 1 commit

• 906a1ee6 - Missed needed import

Compare with previous version

[MicahGale]

added 4 commits

• 379dd9a3 - Fixed issue with number sequence being shadowed on inheritance
• 3a18ad5b - differentiated between int and float 0s
• 05c6a1bb - Updated repr to use ValueNode
• 6fd232a5 - Removed mutated attribute

Compare with previous version

[MicahGale]

added 1 commit

• bbc8b66b - Started writing reverse engineering of formatting function

Compare with previous version

[MicahGale]

added 2 commits

• 6f023952 - Did most of formatting reverse engineering for floats
• 3cc0f5dd - Fully implemented format for string and int

Compare with previous version

[MicahGale]

added 4 commits

• 153e0a23 - Refactored MCNP input file name
• fa202d6c - refactored MCNP_Input to MCNP_object
• fbccc1a6 - Refactored semantic node to SyntaxNode
• c7e01bdc - Refactor SyntaxNode to ParsingNode

Compare with previous version

[MicahGale]

added 2 commits

• c63f41ca - Implemented format for all syntax nodes
• 1ed3b195 - Worked on format for mcnp input for cell

Compare with previous version

[MicahGale]

added 1 commit

• b75a15ba - Updated reverse engineering to not get confused by +/-

Compare with previous version

[MicahGale]

added 35 commits

• b75a15ba...78fb0779 - 34 commits from branch develop
• 19cfc53c - Merge branch 'develop' into 48-add-support-for-keeping-comments

Compare with previous version

[MicahGale]

added 178 commits

• 19cfc53c...ae1c6073 - 177 commits from branch develop
• 7d446f57 - Merge branch 'develop' into 48-add-support-for-keeping-comments

Compare with previous version

[MicahGale]

added 3 commits

• 5666bf33 - Refactored numbered_mcnp_card and fixed bugs from merge
• 309c8bac - refactored files missed by merging
• 9d632f5f - Removed unused imports

Compare with previous version

[MicahGale]

added 5 commits

• f7184d6a - Refactored Card to input
• ccf38de0 - refactored new objects to hide internal properties
• 46e553ce - Refactored wrong parameter for init
• 3edcc8a2 - Made cell density able to be None
• 50a53c32 - Handled None values more gracefully

Compare with previous version

[MicahGale]

added 3 commits

• 8de42e4c - Added none guard to getter
• 707be384 - Removed geometry_logic_testing
• 92b39b4c - Updated tests to use parameter node structure

Compare with previous version

[MicahGale]

added 3 commits

• 17d345b5 - Made utility to make blank valueNode
• 2a628efd - Improved fortran float error handling
• aeda1b64 - Added default nodes for cell

Compare with previous version

[MicahGale]

added 1 commit

• 73eb5ae4 - Moved test_data_cards

Compare with previous version

[MicahGale]

added 3 commits

• 01b928f8 - Made data parser rely on _class_prefix. Needed staticmethod
• 113f7ff2 - Built system to just parse the data classifier
• 637c264d - Worked on material syntax parser

Compare with previous version

[MicahGale]

added 4 commits

• 815d0c98 - Fixed validation code to use new staticmethods
• cc8845f1 - Moved particle parsing to syntax tree.
• b5bf3762 - Made material use syntax tree parsing
• 8d8175b1 - Switched some material attributes to meta properties

Compare with previous version

[MicahGale]

added 5 commits

• 938ca9f5 - Simplified Multiply to avoid reduce/shift conflict bug
• 67be849c - fixed recursive number_sequence problem
• e81680fc - added data card definition to support VOL NO
• c544ed6c - Updated volume parser to use syntax trees
• 337f3a59 - Removed usage of mutated

Compare with previous version

[MicahGale]

added 8 commits

• aa214d60 - Fixed bugs with shortcut node
• 4c87168c - Made list nodes iterable for shortcuts
• 75f7d2b2 - Switched to using list iterator
• ad2c0341 - Added padding to keyword
• 648c05ec - Made all shortcuts take priority
• ac489565 - Allowed shortcuts to have padding
• 5b2f7d4c - Consumed padding for keyword
• 41e3ea19 - Fixed a few bugs with volume

Compare with previous version

[MicahGale]

added 6 commits

• bc74eaa8 - Upgraded to python 3.8
• 284fdd68 - Improved syntax node repr
• dee7662c - Made classifier phrase to avoid identifier numbers being consumed as numbers
• 50899efb - Moved thermal scattering over to syntax tree
• a8d1b38b - Fixed particles node bug
• f90bcd6c - Changed transform over to syntax tree

Compare with previous version

[MicahGale]

added 2 commits

• 52956327 - Removed words test, updated string test to avoid parsing errors
• 4c8bbd14 - Improved data card string

Compare with previous version

[MicahGale]

added 2 commits

• 3bb4917a - Moved material parsing to generic data parsing for fault tolerance
• f1e3ecc4 - Moved words to data for data_inputs

Compare with previous version

[MicahGale]

added 1 commit

• 412692ac - Removed material_parser from imports

Compare with previous version

[MicahGale]

added 4 commits

• 187057a6 - Fixed data init to use data
• 875f49bf - Updated wrapping system to support node formatting
• 1ec477de - Fixed bugs with particle syntax node formatting
• bfdc1f21 - Updated data input format for mcnp

Compare with previous version

[MicahGale]

added 7 commits

• a4441331 - Made padding property for classifier
• a2f640c2 - Fixed float formatting reverse engineering with padding
• 7af948a7 - Allowed space in str of data inputs
• 26465e94 - Fixed format isotopes concentrations formatting
• eb4b742b - Updated comments parsing test to parse inline comments
• 0e80425d - Made it so padding can start with comments
• 0fa9a26c - Made it so inputs can start with comments

Compare with previous version

[MicahGale]

added 3 commits

• 2ec8cf1c - removed dependence on words
• 0c734439 - Updated importance parsing to not use words
• 7f3e05cb - Started updating how cells do cell modfier parsing

Compare with previous version

[MicahGale]

added 3 commits

• b84e4a53 - Finished fixing up syntax tree parsing for importance
• 77bafcb7 - updated cellmodifier parsing to work with syntax tree
• 4cdac815 - Fixed bug with new way to get class prefix

Compare with previous version

[MicahGale]

added 5 commits

• 0bdcaa41 - Made parameters alwasy a Parameters Node
• cb7f47c6 - Made a parameter actually a SyntaxNode with a dict
• faf1ccc0 - Updated cell modifier for improved parameter node
• c689d1b3 - Added value node feature to be 'negatable ident'
• d050c1cd - Updated universe input to use syntax trees

Compare with previous version

[MicahGale]

added 1 commit

• 219998d0 - Made ListNode indexible.

Compare with previous version

[MicahGale]

added 3 commits

• 43b5a977 - Added todo
• bdc3c1d9 - Fixed typo
• 0c7edd97 - Changed volume over to syntax tree

Compare with previous version

[MicahGale]

added 1 commit

• f8ee59c5 - Updated test for new parameterNode

Compare with previous version

[MicahGale]

added 1 commit

• cee405ba - Corrected bug with keys not being added in lower

Compare with previous version

[MicahGale]

added 1 commit

• 111046ec - Fixed bugs with node based values for Volume

Compare with previous version

[MicahGale]

added 4 commits

• b566fda0 - Fixed how volume determines if it is set
• cf0c9fbc - Updated volume tests to use syntax nodes
• fd24b708 - Reenabled type enforcement for volume
• 226921b7 - Fixed final old volume init structure

Compare with previous version

[MicahGale]

added 2 commits

• b91d183f - Updated importance to use new parameter structure
• 8afe7b6e - Reintroduced is_comment to keep comments from flushing an input

Compare with previous version

[MicahGale]

added 1 commit

• eaed5709 - Made malformed exception clearer.

Compare with previous version

[MicahGale]

added 2 commits

• df0563ab - Added todo
• 3685a79f - Removed use of words from test

Compare with previous version

[MicahGale]

added 1 commit

• 81e9756b - Made it so just a block of comments doesn't get flushed

Compare with previous version

[MicahGale]

added 4 commits

• 7eeac56c - Added exception to treat shortucts in geometry as unions
• bbd58967 - Fixed bug with how geometry parense were stored as syntax nodes
• d512863c - Fixed bug with interpolate syntax parsing
• c9d401c7 - Fixed surface init bug

Compare with previous version

[MicahGale]

added 5 commits

• c9d401c7...fad91b3f - 4 commits from branch develop
• db3062ff - Merge branch 'develop' into 48-add-support-for-keeping-comments

Compare with previous version

[MicahGale]

added 3 commits

• e1652e61 - Updated surface parser to return syntax tree
• 9fc0570f - Updated surfaces to use syntax tree parsing
• c900f951 - fixed bugs with MCNP problem pointers update

Compare with previous version

[MicahGale]

added 2 commits

• 1d6bc16e - Made surface one with the syntax tree
• a2f0e710 - Added way for type enforcement to self

Compare with previous version

[MicahGale]

added 9 commits

• 3fcc65e7 - Fixed surface type init, and made surface type a value node
• 9b81b39b - Made surface syntax tree have blank values
• bb2d58e5 - Fixed surface init
• 45c99bea - Fixed enforce numbers function bug
• 8bb76a10 - Updated surface init
• a195a3f3 - Fixed surface typo
• 1af03c4d - Fixed issues with binding variables
• 045c671b - Updated surface format for mcnp
• 12472e08 - Avoid reverse engineering None

Compare with previous version

[MicahGale]

added 3 commits

• a5d59ccc - Added detection for + getting put in number
• b60ce65c - Removed old words
• 944a30fe - Exposed token of value node

Compare with previous version