Wangc/bison interface

[wangcj05]

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Pull Request Description

What issue does this change request address? (Use "#" before the issue to link it, i.e., #42.)

This PR will address the following issues:

close #2159 close #1609 close #2080

What are the significant changes in functionality due to this change request?

Allow moose interface to accept top level variables, as well as some improvements on how to output csv file.

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For Change Control Board: Change Request Review

The following review must be completed by an authorized member of the Change Control Board.

• [x] 1. Review all computer code.
• [x] 2. If any changes occur to the input syntax, there must be an accompanying change to the user manual and xsd schema. If the input syntax change deprecates existing input files, a conversion script needs to be added (see Conversion Scripts).
• [x] 3. Make sure the Python code and commenting standards are respected (camelBack, etc.) - See on the wiki for details.
• [x] 4. Automated Tests should pass, including run_tests, pylint, manual building and xsd tests. If there are changes to Simulation.py or JobHandler.py the qsub tests must pass.
• [x] 5. If significant functionality is added, there must be tests added to check this. Tests should cover all possible options. Multiple short tests are preferred over one large test. If new development on the internal JobHandler parallel system is performed, a cluster test must be added setting, in XML block, the node <internalParallel> to True.
• [x] 6. If the change modifies or adds a requirement or a requirement based test case, the Change Control Board's Chair or designee also needs to approve the change. The requirements and the requirements test shall be in sync.
• [x] 7. The merge request must reference an issue. If the issue is closed, the issue close checklist shall be done.
• [x] 8. If an analytic test is changed/added is the the analytic documentation updated/added?
• [x] 9. If any test used as a basis for documentation examples (currently found in raven/tests/framework/user_guide and raven/docs/workshop) have been changed, the associated documentation must be reviewed and assured the text matches the example.

[moosebuild]

Job Mingw Test on fa76b9d : invalidated by @joshua-cogliati-inl

failed in fetch

[moosebuild]

Job Mingw Test on fa76b9d : invalidated by @wangcj05

timeout

[moosebuild]

Job Mingw Test on fa76b9d : invalidated by @wangcj05

fetch issue

[moosebuild]

Job Mingw Test on fa76b9d : invalidated by @wangcj05

some issues with test machines

[wangcj05]

Hi @PaulTalbot-INL and @joshua-cogliati-inl, can any of you have time to review this PR?

[wangcj05]

@PaulTalbot-INL Thanks for your comments, I have resolved your comments.

[PaulTalbot-INL]

Good to merge if tests pass without further changes.