only exclude clsi-specific files from output list

services/clsi/app/coffee/OutputFileFinder.coffee

@@ -29,8 +29,10 @@ module.exports = OutputFileFinder =
 		callback = (error, fileList) ->
 			_callback(error, fileList)
 			_callback = () ->
-				
-		args = [directory, "-name", ".*", "-prune", "-o", "-type", "f", "-print"]
+
+		# don't include clsi-specific files/directories in the output list
+		EXCLUDE_DIRS = ["-name", ".cache", "-o", "-name", ".archive","-o", "-name", ".project-*"]
+		args = [directory, "(", EXCLUDE_DIRS..., ")", "-prune", "-o", "-type", "f", "-print"]
 		logger.log args: args, "running find command"
 
 		proc = spawn("find", args)

services/clsi/app/coffee/ResourceWriter.coffee

@@ -78,8 +78,6 @@ module.exports = ResourceWriter =
 					should_delete = true
 					if path.match(/^output\./) or path.match(/\.aux$/) or path.match(/^cache\//) # knitr cache
 						should_delete = false
-					if path == '.project-sync-state'
-						should_delete = false
 					if path == "output.pdf" or path == "output.dvi" or path == "output.log" or path == "output.xdv"
 						should_delete = true
 					if path == "output.tex" # created by TikzManager if present in output files