Revise incremental documentation and interface

[netj]

https://github.com/HazyResearch/deepdive/blob/master/doc/doc/advanced/incremental.md
http://deepdive.stanford.edu/doc/advanced/incremental.html

• Fix typos and formatting issues causing confusion
• Migrate to the deepdive run command within the .sh scripts
• Provide more deepdive sub-commands exposing the operations for different incremental phases
• Replace the .sh scripts with the new sub-commands and update documentation

[feiranwang]

Hi Jaeho, I was trying to update the interface as well as the incremental ddlog program to reflect recent ddlog changes. Since #376 updates ddlog, I think it would be better if #376 is reviewed and I base this work on top of it.

[netj]

@feiranwang Sorry I wasn't clear about my intention. I was postponing the merge because it was modifying the docs that may conflict with other more urgent issues. It looks good so please base your commits on top of #376.

[feiranwang]

@netj Sounds good. Thanks!

[zhangce]

@netj Is anyone doing the pass of documentation here? I can still see
grammatical errors in that page (I am happy to do one pass if no one is doing this)

[feiranwang]

@zhangce The doc is updated in incremental_update branch. I'm updating the interface while running experiments...

[zhangce]

@zhangce The doc is updated in incremental_update branch. I'm updating the interface while running experiments...

@thodrek

[thodrek]

@zhangce Fixed some typos in the incremental.md file.