send html

app/coffee/CompileController.coffee

@@ -39,6 +39,8 @@ module.exports = CompileController =
 						for file in outputFiles
 							if file.path?.match(/output\.pdf$/)
 								status = "success"
+							if file.path?.match(/output\.html$/)
+								status = "success"
 						# log an error if any core files are found
 						for file in outputFiles
 							if file.path is "core"
@@ -48,7 +50,7 @@ module.exports = CompileController =
 					res.status(code or 200).send {
 						compile:
 							status: status
-							error:  error?.message or error
+							error:	error?.message or error
 							outputFiles: outputFiles.map (file) ->
 								url:
 									"#{Settings.apis.clsi.url}/project/#{request.project_id}" +

app/coffee/LatexRunner.coffee

@@ -16,7 +16,7 @@ module.exports = LatexRunner =
 
 		# We want to run latexmk on the tex file which we will automatically
 		# generate from the Rtex/Rmd/md file.
-		mainFile = mainFile.replace(/\.(Rtex|md|Rmd)$/, ".tex")
+		mainFile = mainFile.replace(/\.(Rtex|md|Rmd)$/, ".md")
 
 		if compiler == "pdflatex"
 			command = LatexRunner._pdflatexCommand mainFile
@@ -32,6 +32,12 @@ module.exports = LatexRunner =
 		if Settings.clsi?.strace
 			command = ["strace", "-o", "strace", "-ff"].concat(command)
 
+		# ignore the above and make a pandoc command
+		console.log(mainFile)
+		console.log(image)
+		image = "ivotron/pandoc"
+		command = ["-o", "$COMPILE_DIR/output.html", "/compile/" + mainFile]
+
 		id = "#{project_id}" # record running project under this id
 
 		ProcessTable[id] = CommandRunner.run project_id, command, directory, image, timeout, environment, (error, output) ->