* R/shiny-ui-base.R(validate,validate1):

Function validate changed back to shiny original. Introduced validate1
when there is no need for `need'.

* R/resources.R(EMPTY_KNOWN): New variable.

Column headers for trivial known compounds table.

* R/api.R(vrfy_conf): Clearer file.exist messages.

* R/api.R(load_inputs): Load known table only if the file exist,
  because there may be only the unknown compound list.

* R/mix.R(read_conf): New function.

* R/shiny-ui-base.R(conf2rv_conf): New function.
  In order to save config as yaml function, the reactive form of
  config must be converted to a list.

 (input$restoreConfB): New observer.

* R/shiny-ui-base.R(server_conf), R/shiny-ui-top.R(server): Now that
  we update rv inside server_conf, it must return it in some way.

* R/shiny-ui-base.R(obsrv_e,validate,vol_f): New wrappers.

* R/shiny-ui-config.R(saveConfB): Change default filename and
  filetype.

* R/shiny-ui-config.R(input$saveConfB): New observer.

Because we decided to split the server and UI definitions into
separate "modules", we also needed to create a way for different
modules to exchange their reactive values and functions.

In this regard, each module is going to have two server-like
functions, react_module-name_f and react_module-name_v, which will
define and return reactive functions and objects, respectively. Each
such function is server-like, i.e. it will take input, output and
session arguments. The two remaining arguments are rv and rf, for the
input reactive values and functions.

* R/shiny-ui-config.R(react_conf_v): New function.
  Add conf-related reactive values.

  (react_vonf_f): New function. Add conf-related reactive functions.

  (server_conf): Update observers.

* R/shiny-ui-top.R(server): Adapt to the new concept.

* R/shiny-ui-base.R(react_v,react_f,react_e, obsrv, vols): New
  functions.
  Wrap functions that are used a lot.

* R/shiny-ui-base.R(path2vol): New function.

* R/shiny-ui-config.R: New file.
  It will contain everything related to the configuration tab of the
  former shinyUI.R

* R/shiny-ui-top.R: Updated with the config plug-in.

* DESCRIPTION: Updated.

* R/shinyUI.R: Removed.
  A monolithic file that became difficult to maintain.

* R/shiny-ui-top.R: New file. Contains top-level server and interface
  functions.

(mk_ui): New function. Replace old mkUI and serve as a top-level user
interface definition function.

(mk_shinyscreen): Removed most of it. Only the top-level content
remains.

* DESCRIPTION: Updated.

* R/shiny-ui-base.R: New file. Shiny wrappers.

R/api.R (mk_comp_tab): New function.

* R/mix.R(get_set_mode): New function. Replaces and enhances
  getSetMode.

* R/shinyUI.R(getSetMode): Remove getSetMode.

* R/base.R (tab2file,file2tab): Return and write data.table objects.

(print_table): New function. Prints a data frame, or a table nicely.

R/api.R (vrfy_conf) : Modified assertions.

R/api.R(mk_mzml_tab): This version is script compatible.

* R/resources.R: Finally correct mode names.

* R/api.R: Validation on compound lists and sets.

* R/shinyUI.R(launch): New arguments.
Added ability to launch in script mode (if GUI=F).

* api.R (read_conf): Add a test.

api.R (run): New argument.
Use withr:with_dir to evaluate inside dir.

(run_in_dir): New function.
This is where the body will go.

(vrfy_conf): New tests.

DESCRIPTION: New dependencies.

NAMESPACE: New imports.

R/api.R (read_conf,vrfy_conf): New functions.

With dir

See merge request eci/shinyscreen!24

One can switch the project, do the extraction, but: the status lamps
are wrong (previous project) and plots throw errors.