Mercurial > repos > iuc > ebi_search_rest_results

annotate generate_macros.py @ 4:27b671092ca2 draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 31d1c92a4c12b6a78693dc5091a08536a075285e
author iuc
date Thu, 09 Feb 2017 12:02:18 -0500
parents 65dab8f2f32e
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
4
27b671092ca2 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 31d1c92a4c12b6a78693dc5091a08536a075285e
iuc
parents: 2
diff changeset
1 #!/usr/bin/env python
0
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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2
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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3 import ebeye_urllib
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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4
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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5
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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6 def add_option(value, name, selected=False):
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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7 to_write = '<option '
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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8 to_write += 'value="%s"' % (value)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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9 if selected:
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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10 to_write += ' selected="true"'
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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11 to_write += '>%s' % (name)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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12 to_write += '</option>\n'
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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13 return to_write
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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14
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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iuc
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16 def add_select_parameter(name, label, multiple=False):
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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17 to_write = '<param '
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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18 to_write += 'name="%s" ' % (name)
2
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iuc
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19 to_write += 'type="select"'
0
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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20 if multiple:
2
65dab8f2f32e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 89e3a62dd6cbc8bcec84d08c1710bfb4e7f5938f
iuc
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21 to_write += ' multiple="true" optional="false"'
65dab8f2f32e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 89e3a62dd6cbc8bcec84d08c1710bfb4e7f5938f
iuc
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22 to_write += ' label="%s"' % (label)
0
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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23 to_write += '>\n'
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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24 return to_write
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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25
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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26
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iuc
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27 def write_macros_file(macros_filepath, domains_fields):
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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28 spaces = ' '
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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29 to_write = '<macros>\n'
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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31 to_write += '%s<xml name="requirements">\n' % (spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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32 to_write += '%s<requirements>\n' % (2 * spaces)
2
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iuc
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33 to_write += '%s<requirement type="package" version="2.7.12">python</requirement>\n' % (3 * spaces)
0
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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34 to_write += '%s<requirement type="package" version="3.1.1">xmltramp2</requirement>\n' % (3 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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35 to_write += '%s<requirement type="package" version="1.12">urllib3</requirement>\n' % (3 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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36 to_write += '%s<yield/>\n' % (3 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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37 to_write += '%s</requirements>\n' % (2 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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38 to_write += '%s</xml>\n' % (spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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39
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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40 to_write += '%s<xml name="inputs">\n' % (spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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41
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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42 to_write += '%s<conditional name="searched_domain">\n' % (2 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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43 to_write += '%s%s' % (3 * spaces, add_select_parameter(
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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44 'domain',
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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45 'Domain to query'))
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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46
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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47 sorted_domains = [(d, domains_fields[d]['name']) for d in domains_fields.keys()]
2
65dab8f2f32e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 89e3a62dd6cbc8bcec84d08c1710bfb4e7f5938f
iuc
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48 sorted_domains.sort(key=lambda tup: tup[1])
0
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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49 for domain in sorted_domains:
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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50 to_write += '%s%s' % (4 * spaces, add_option(
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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51 domain[0],
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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52 domain[1]))
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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53
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iuc
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54 to_write += '%s</param>\n\n' % (3 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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55
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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56 for d in sorted_domains:
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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57 domain = d[0]
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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58 to_write += '%s<when value="%s">\n' % (3 * spaces, domain)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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59
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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60 to_write += '%s%s' % (4 * spaces, add_select_parameter(
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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61 'fields',
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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62 'Fields to extract',
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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63 multiple=True))
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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64 for field in domains_fields[domain]['retrievable_fields']:
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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65 to_write += '%s%s' % (5 * spaces, add_option(
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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66 field,
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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67 field,
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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68 selected=True))
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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69 to_write += '%s</param>\n' % (4 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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70
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71 to_write += '%s<repeat name="queries" title="Add a query">\n' % (
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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72 4 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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73
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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74 to_write += '%s%s' % (5 * spaces, add_select_parameter(
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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75 'combination_operation',
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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76 'Combination operation'))
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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77 to_write += '%s%s' % (6 * spaces, add_option('AND', 'AND'))
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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78 to_write += '%s%s' % (6 * spaces, add_option('OR', 'OR'))
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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79 to_write += '%s%s' % (6 * spaces, add_option('NOT', 'NOT'))
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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80 to_write += '%s</param>\n' % (5 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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81
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
iuc
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82 to_write += '%s%s' % (5 * spaces, add_select_parameter(
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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83 'query_field',
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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84 'Fields'))
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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85 for field in domains_fields[domain]['searchable_fields']:
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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86 to_write += '%s%s' % (6 * spaces, add_option(field, field))
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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87 to_write += '%s</param>\n' % (5 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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88
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89 to_write += '%s<conditional name="comp_operation">\n' % (5 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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90 to_write += '%s%s' % (6 * spaces, add_select_parameter(
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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91 'operation',
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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92 'Comparison operation'))
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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93 to_write += '%s%s' % (7 * spaces, add_option('equal', 'equal'))
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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94 to_write += '%s%s' % (7 * spaces, add_option('not', 'not'))
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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95 to_write += '%s%s' % (7 * spaces, add_option('range', 'range'))
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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96 to_write += '%s</param>\n' % (6 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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97
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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98 to_write += '%s<when value="equal">\n' % (6 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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99 to_write += '%s<param name="query_text" type="text" label="Searched term"/>\n' % (7 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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100 to_write += '%s</when>\n' % (6 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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101
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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102 to_write += '%s<when value="not">\n' % (6 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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103 to_write += '%s<param name="query_text" type="text" label="Searched term"/>\n' % (7 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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104 to_write += '%s<param name="not_query_text" type="text" label="Limiting term"/>\n' % (7 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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105 to_write += '%s</when>\n' % (6 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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106
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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107 to_write += '%s<when value="range">\n' % (6 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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108 to_write += '%s<param name="min" type="text" label="From"/>\n' % (7 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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109 to_write += '%s<param name="max" type="text" label="To"/>\n' % (
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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110 7 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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111 to_write += '%s</when>\n' % (6 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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112
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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113 to_write += '%s</conditional>\n' % (5 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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114
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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115 to_write += '%s</repeat>\n' % (4 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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116
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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117 to_write += '%s</when>\n\n' % (3 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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118
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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119 to_write += '%s</conditional>\n' % (2 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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120 to_write += '%s</xml>\n' % (spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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121
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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122 to_write += '%s<xml name="citations">\n' % (spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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123 to_write += '%s<citations>\n' % (2 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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124 to_write += '%s<citation type="doi">10.1093/bib/bbp065</citation>\n' % (3 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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125 to_write += '%s<citation type="doi">10.1093/nar/gkv316</citation>\n' % (3 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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126 to_write += '%s</citations>\n' % (2 * spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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127 to_write += '%s</xml>\n' % (spaces)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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128
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129 to_write += '</macros>\n'
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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130
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131 with open(macros_filepath, 'w') as macros_file:
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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132 macros_file.write(to_write)
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133
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134
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135 def generate_macros():
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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136 domains_fields = ebeye_urllib.getDomainHierarchy()
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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137 write_macros_file('macros.xml', domains_fields)
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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138
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139
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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140 if __name__ == '__main__':
8c590a6ac2d6 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/ebi_tools commit 7a9c88c1c80b80aaa63e55e9d9125b6a4dd695ac
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141 generate_macros()