Tweak to make start.model.runs() wait for remote jobs.

When running on geo.bu.edu, the status message 'out' was coming back as character(0). Then nchar(out)>0 evaluates to logical(0) and causes an error. length(out)>0 evaluates to FALSE as desired.
Merge pull request #249 from ryankelly-uiuc/fix_start.model.runs

Tweak to make start.model.runs() wait for remote jobs.
Fixed write.configs.ed.R to use path+prefix to site/pss/css file. Closes gh-242.
Set IED_INIT_MODE=3 in ED2IN templates.

Reasonable workaround to issue gh-243, which has been updated to describe a better permanent solution.
Merge pull request #250 from ryankelly-uiuc/fix_ED2_SFILIN

Fixed write.configs.ed.R to use path+prefix to site file. Closes gh-242.
Merge pull request #251 from ryankelly-uiuc/fix_ED2IN_templates

Set IED_INIT_MODE=3 in ED2IN templates.
Tweak to make trait conversion (e.g. LMA->SLA) less random

Per discussion at gh-245, setting the random seed before doig trait conversion
should prevent re-run of meta-analysis when forceupdate=AUTO (if traits really
haven't changed since last run).
Added warning for non-matching pss/css/site files

ED will still run if pss and css files exist with the same path+prefix
as the site file, but Pecan gives a warning so user knows they aren't
using the css/pss files they specified in settings.
Merge pull request #252 from ryankelly-uiuc/fix_query.trait.data

Tweak to make trait conversion (e.g. LMA->SLA) less random
Merge pull request #254 from ryankelly-uiuc/ED_input.path.check

Added warning for non-matching pss/css/site files
Using same random seed as test.derive.traits.R
Merge pull request #255 from ryankelly-uiuc/fix_horrible_test_failure

Fix previous edit that makes horrible failed test emails go to everyone
modified workflow.R so that it can take the settings file as a command line arguement
Merge branch 'master' of github.com:PecanProject/pecan
Merge pull request #258 from mdietze/master

Modified workflow.R to take settings file as cmd arg
Merge branch 'master' of github.com:PecanProject/pecan