Roxygen code for the download class.
Merge branch 'master' of https://github.com/SimonGoring/neotoma
Merge remote-tracking branch 'upstream/master'
Multiple changes to standardize keywords and imports.
* Changed testthat filename to see if that helps automatically run tests.  It doesn't seem to
* using the `importFrom` tag seems to be causing errors as functions keep importing the same methods.  I need to look into that.
Merge remote-tracking branch 'upstream/master'
Changing some text in get_download.
Changing `@import` statements and standardizing column and list names.  Also added `download_list` objects.
Re-checked and built.
Removed all plyr commands, changed import statements to importFrom, cleaning code.
- `compile_downloads` removed plyr import.
- `compile_taxa`  removed plyr import, added code block to make it work with `do.call`
- `get_contacts` changed keywords
- `get_dataset` added a `download_list` method.
- `get_datasets` changed keywords, fixed import to importFrom
- `get_download` added importFrom, changed keywords, removed plyr dependency
- `get_site` changed keywords
- `get_sites` changed keywords, changed import to importFrom
- get_table` changed keywords
- get_taxa` changed keywords
- `print.download_list` made it prettier by adding a table of site names.
- rebuilt & re-oxygenized.
Resolved conflict between hub version and laptop.  Accepted all changes from the last commit.

Merge branch 'master' of http://github.com/SimonGoring/neotoma

Conflicts:
	R/get_dataset.R
	R/get_download.R
Added `plyr` dependency back into `compile_download`.  It's the cleanest way I know to deal with variable column numbers. @gavinsimpson if you know a better way that wouldn't use plyr I'm happy to implement it.
Changes to fix class and variable assignments:
- `get_dataset`
  - renamed `site.data` to `site`, making it clear it is part of the `site` class.
  - `dataset` becomes `dataset.meta` since it is one `data.frame` in the `dataset` class.
  - created new `dataset_list` class, similar to the `download_list`.
  - all changes cascaded through the different methods.
Changes to fix class and variable assignments:
- `get_download`
  - the `metadata` object is now properly called `dataset` since it is a `dataset` and is of class `dataset`.
  - `metadata$site.data` is now `dataset$site` to reflect changes to the `dataset` and `site` classes.
  - `submission` has variable names changed.
  - changes cascade throughout methods
  - added a new method for the `dataset_list` class.
Changes to fix class and variable assignments:
- `get_site`
  - mostly changes to the methods for classes.
Fixes reflecting changes to the variable names within classes.  All methods should work now.
Misc. commits.
- Trying to fix a check note about global variables in `compile_list`
- adding new tests to neotoma_test
- cleaning & rebuilding
Fixed the `data` call in `compile_taxa` because it was throwing an error.  Built a test in `neotoma_test.R` to check both `download_list` and `download` implementations of `compile_taxa`.
Merge pull request #143 from SimonGoring/master

Finding consistency between classes.