Mercurial > repos > ganjoo > webservice_toolsuite

annotate WebServiceToolWorkflow/edit_tool_conf.py @ 0:d5cd409b8a18 default tip

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Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
author ganjoo
date Tue, 07 Jun 2011 18:00:50 -0400
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d5cd409b8a18 Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
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1 import os
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2
d5cd409b8a18 Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
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3 class editToolConfig(object):
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4 def addTool(self,toolName):
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5 galaxyhome=os.environ.get('GALAXY_HOME')
d5cd409b8a18 Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
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6 f1=open(galaxyhome+'/tool_conf.xml','r')
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7 f1.seek(0,0)
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8 f2=open(galaxyhome+'/tool_conf_backup.xml','w')
d5cd409b8a18 Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
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9 f2.seek(0,0)
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d5cd409b8a18 Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
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11 ##first copy everything upto WebServiceTool1.xml into another file f2
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12 line = f1.readline()
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13 f2.write(line)
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14
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15 lineStripped=line.lstrip()
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16 lineStripped=lineStripped.rstrip()
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17
d5cd409b8a18 Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
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18 #add the workflow Web service invocation tool under Web Service Workflow Tools section
d5cd409b8a18 Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
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19 while not lineStripped == '<section name="Web Service Workflow Tools" id="WebServiceWorkflow">':
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20 line = f1.readline()
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21 f2.write(line)
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22 lineStripped = line.lstrip()
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23 lineStripped=lineStripped.rstrip()
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24 else:
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25 print line
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26
d5cd409b8a18 Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
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27 ## add new tool to f2
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28 f2.write(' <tool file="WebServiceToolWorkflow/workflowclients/'+toolName + '.xml"/>\n')
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29
d5cd409b8a18 Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
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30 ## copy rest of f1 into f2
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31 while not lineStripped == '</toolbox>':
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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
d5cd409b8a18 Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
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38
d5cd409b8a18 Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
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39 ##close f1 and f2
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40 f1.close()
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41 f2.close()
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42
d5cd409b8a18 Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
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43 ##interchange modes of f1 and f2
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44 f1=open(galaxyhome+'/tool_conf.xml','w')
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45 f1.seek(0,0)
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46 f2=open(galaxyhome+'/tool_conf_backup.xml','r')
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47 f2.seek(0,0)
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48
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49 line = f2.readline()
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50 f1.write(line)
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51
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52 lineStripped=line.lstrip()
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53
d5cd409b8a18 Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
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54 ##write entire f2 into f1 (reverse roles)
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55 while not lineStripped == '</toolbox>':
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56 line = f2.readline()
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57 f1.write(line)
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58 lineStripped = line.lstrip()
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59 lineStripped=lineStripped.rstrip()
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60 else:
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61 print line
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62
d5cd409b8a18 Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
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63 f1.close()
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64 f2.close()