added cleaning of searchfiles right after peptideshaker ran
made a backup plan for lack of precursor acc
moved the cleaning of junk to the very end of the process to prevent errors
Merge branch 'master' into develop

Conflicts:
	compomics-relims/src/main/java/com/compomics/relims/modes/networking/worker/general/ResultManager.java

Reasoun : missing methods that I implemented on master before
correctly placed removeJunk method
ignoring image files
implementing charge estimation
added charge estimation, changed pride (talk to Niels, errors happening on build)
Restructured entire workflow to put RelimsProjectBean at the center of the process.
This greatly improves control of parameters and simplifies the code
Improve dialogs + started to remove variablemanager
Removed login, added logo and added option to name taskcontainer
Made new clientGUI and removed unneeded class
Disabled dispose after tasks are sent to controller
Made projectdialogs appear instead
logo + unneeded file
changed restructured version
removed unneeded methods --->prepare from scratch etc
Removed some glitches and double debug statements ---> ASCORE HAS TO BE ON !!!!!
finetuned gui and removed controller gui
Expanded ignore list
Made sure repositorymanager gets correct resultfolder
Added comments to variables
Added complete constructor for repositoryfiles
Logging command statements