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1 '''
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2 @author Chaitanya Guttula, Sumedha Ganjoo
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3 @see LICENSE (MIT style license file).
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4 '''
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5
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6 import os
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7
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8 '''
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9 Open the toolconf.xml file and adds the tool under 'Web Service Workflow Tools' that has been passed to it.
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10
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11 '''
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12
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13 __author__="Chaitanya Guttula, Sumedha Ganjoo"
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14
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15 class editToolConfig(object):
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16 def addTool(self,toolName):
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17 galaxyhome=os.environ.get('GALAXY_HOME')
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18 f1=open(galaxyhome+'/tool_conf.xml','r')
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19 f1.seek(0,0)
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20 f2=open(galaxyhome+'/tool_conf_backup.xml','w')
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21 f2.seek(0,0)
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22
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23 ##first copy everything upto WebServiceTool1.xml into another file f2
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24 line = f1.readline()
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25 f2.write(line)
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26
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27 lineStripped=line.lstrip()
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28 lineStripped=lineStripped.rstrip()
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29
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30 #add the workflow Web service invocation tool under Web Service Workflow Tools section
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31 while not lineStripped == '<section name="Web Service Workflow Tools" id="WebServiceWorkflow">':
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32 line = f1.readline()
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33 f2.write(line)
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34 lineStripped = line.lstrip()
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35 lineStripped=lineStripped.rstrip()
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36 else:
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37 print line
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38
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39 ## add new tool to f2
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40 f2.write(' <tool file="WebServiceToolWorkflow_REST_SOAP/workflowclients/'+toolName + '.xml"/>\n')
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41
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42 ## copy rest of f1 into f2
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43 while not lineStripped == '</toolbox>':
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44 line = f1.readline()
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45 f2.write(line)
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46 lineStripped = line.lstrip()
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47 lineStripped=lineStripped.rstrip()
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48 else:
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49 print line
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50
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51 ##close f1 and f2
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52 f1.close()
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53 f2.close()
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54
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55 ##interchange modes of f1 and f2
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56 f1=open(galaxyhome+'/tool_conf.xml','w')
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57 f1.seek(0,0)
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58 f2=open(galaxyhome+'/tool_conf_backup.xml','r')
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59 f2.seek(0,0)
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60
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61 line = f2.readline()
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62 f1.write(line)
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63
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64 lineStripped=line.lstrip()
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65
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66 ##write entire f2 into f1 (reverse roles)
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67 while not lineStripped == '</toolbox>':
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68 line = f2.readline()
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69 f1.write(line)
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70 lineStripped = line.lstrip()
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71 lineStripped=lineStripped.rstrip()
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72 else:
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73 print line
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74
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75 f1.close()
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76 f2.close()
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