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78 lines
2.8 KiB
78 lines
2.8 KiB
include ApplicationHelper
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include TableBuilder
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#
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# Copyright 2012 The Board of Regents of the University of Wisconsin System.
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# Contributors: Jason Shao, James McCurdy, Enhai Xie, Adam G.W. Halstead,
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# Michael H. Whitney, Nathan DiPiazza, Trey K. Sato and Yury V. Bukhman
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#
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# This file is part of GCAT.
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#
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# GCAT is free software: you can redistribute it and/or modify
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# it under the terms of the GNU Lesser General Public License as published by
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# the Free Software Foundation, either version 3 of the License, or
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# (at your option) any later version.
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#
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# GCAT is distributed in the hope that it will be useful,
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# but WITHOUT ANY WARRANTY; without even the implied warranty of
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# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
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# GNU Lesser General Public License for more details.
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#
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# You should have received a copy of the GNU Lesser General Public License
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# along with GCAT. If not, see <http://www.gnu.org/licenses/>.
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#
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class AssaysController < ApplicationController
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def new
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@assay= Assay.new
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end
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def create
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#Lazy mass assign from form params
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@assay = Assay.new(params[:assay])
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if @assay.valid?
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# Add the calls to methods to parse the form input in @assay and execute R script.
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# return the results from R into a new instance variable and display results via show template
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#reassign some parameters. Validate on form input params or after manipulations?
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@assay = @assay.parse_form_params
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#debugger
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#execute R calculation and assign instance variable to display
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@result = @assay.r_calculation
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# no need to keep storing old data
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#temp fix for pdfFiles see ticket #424. string of pdfFiles returned rather than array
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unless @result[:pdfFiles].nil?
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@result[:pdfFiles] = @result[:pdfFile].split('pdf')
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@result[:pdfFiles].collect{|element| element + 'pdf'}
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end
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if ( @result.has_key? :error_message ) #h.has_key?("a") # @result.has_key? :error_message
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flash.now[:error] = @result[:error_message] #.join("\n")
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#do not allow bad guys to fill disc space with invalid files
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FileUtils.rm @result[:path]
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# render :action => 'inputfile_error_message'
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@error_msg = @result[:error_message]
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@console_msg = @result[:console_msg]
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render :action => 'inputfile_error_message'
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else
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# parse the output text file into a hash in order to create a table in Assays#show
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@table = output_table(@result, !@result[:layout_file].nil?)
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remove_old_files(relative_path(@result[:zipfile]))
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flash.now[:notice] = "Your assay processed!\nPlease click on any of plate diagrams to save your results to a zip archive."
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render :action => 'show'
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end
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else
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render :action => 'new'
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end
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end
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end
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