Mercurial > repos > iuc > filter_tabular

annotate macros.xml @ 15:c980ca86636b draft default tip

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit dd35055c76d86fe98985b5825c1751efb8208242
author iuc
date Thu, 27 Jun 2024 17:22:58 +0000
parents 7ddbba636f33
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
1 <macros>
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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diff changeset
2 <token name="@LINEFILTERS@">
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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diff changeset
3 <![CDATA[
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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diff changeset
4 ## set linefilters to the
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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diff changeset
5 #set $input_filters = []
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
6 #for $fi in $linefilters:
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
7 #if $fi.filter.filter_type == 'skip':
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
8 #set $skip_lines = None
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
9 #if str($fi.filter.skip_lines) != '':
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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diff changeset
10 #set $skip_lines = int($fi.filter.skip_lines)
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c980ca86636b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit dd35055c76d86fe98985b5825c1751efb8208242
iuc
parents: 14
diff changeset
11 #elif $table.metadata.comment_lines and int($table.metadata.comment_lines) > 0:
c980ca86636b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit dd35055c76d86fe98985b5825c1751efb8208242
iuc
parents: 14
diff changeset
12 #set $skip_lines = int($table.metadata.comment_lines)
0
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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diff changeset
13 #end if
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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diff changeset
14 #if $skip_lines is not None:
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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diff changeset
15 #set $filter_dict = dict()
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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diff changeset
16 #set $filter_dict['filter'] = str($fi.filter.filter_type)
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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diff changeset
17 #set $filter_dict['count'] = $skip_lines
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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diff changeset
18 #silent $input_filters.append($filter_dict)
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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19 #end if
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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diff changeset
20 #elif $fi.filter.filter_type == 'comment':
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
21 #set $filter_dict = dict()
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
22 #set $filter_dict['filter'] = 'regex'
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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23 #set $filter_dict['pattern'] = '^(%s).*$' % '|'.join([chr(int(x)).replace('|','[|]') for x in (str($fi.filter.comment_char)).split(',')])
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
24 #set $filter_dict['action'] = 'exclude_match'
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
25 #silent $input_filters.append($filter_dict)
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
26 #elif $fi.filter.filter_type == 'regex':
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
27 #set $filter_dict = dict()
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
28 #set $filter_dict['filter'] = str($fi.filter.filter_type)
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
29 #set $filter_dict['pattern'] = str($fi.filter.regex_pattern)
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
30 #set $filter_dict['action'] = str($fi.filter.regex_action)
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
31 #silent $input_filters.append($filter_dict)
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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diff changeset
32 #elif $fi.filter.filter_type == 'select_columns':
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
33 #set $filter_dict = dict()
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
34 #set $filter_dict['filter'] = str($fi.filter.filter_type)
13
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
parents: 12
diff changeset
35 #set $filter_dict['columns'] = [int($c) for $c in str($fi.filter.columns).replace('c','').split(',')]
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
parents: 12
diff changeset
36 #silent $input_filters.append($filter_dict)
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
parents: 12
diff changeset
37 #elif $fi.filter.filter_type == 'select_column_slices':
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
parents: 12
diff changeset
38 #set $filter_dict = dict()
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
parents: 12
diff changeset
39 #set $filter_dict['filter'] = str($fi.filter.filter_type)
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
parents: 12
diff changeset
40 #set $filter_dict['columns'] = [$c for $c in str($fi.filter.columns).split(',')]
0
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
41 #silent $input_filters.append($filter_dict)
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
42 #elif $fi.filter.filter_type == 'replace':
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
43 #set $filter_dict = dict()
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
44 #set $filter_dict['filter'] = str($fi.filter.filter_type)
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
45 #set $filter_dict['column'] = int(str($fi.filter.column).replace('c',''))
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
46 #set $filter_dict['pattern'] = str($fi.filter.regex_pattern)
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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47 #set $filter_dict['replace'] = str($fi.filter.regex_replace)
9
64a96306112e "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit daa9af57fe07ee83a45ddc9f855716f9d14a8e12"
iuc
parents: 8
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48 #if $fi.filter.add:
64a96306112e "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit daa9af57fe07ee83a45ddc9f855716f9d14a8e12"
iuc
parents: 8
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49 #set $filter_dict['add'] = str($fi.filter.add)
64a96306112e "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit daa9af57fe07ee83a45ddc9f855716f9d14a8e12"
iuc
parents: 8
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50 #end if
0
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
51 #silent $input_filters.append($filter_dict)
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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diff changeset
52 #elif str($fi.filter.filter_type).endswith('pend_line_num'):
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
53 #set $filter_dict = dict()
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
54 #set $filter_dict['filter'] = str($fi.filter.filter_type)
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
55 #silent $input_filters.append($filter_dict)
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
56 #elif str($fi.filter.filter_type).endswith('pend_text'):
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
57 #set $filter_dict = dict()
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
58 #set $filter_dict['filter'] = str($fi.filter.filter_type)
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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59 #set $filter_dict['column_text'] = str($fi.filter.column_text)
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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60 #silent $input_filters.append($filter_dict)
13
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
parents: 12
diff changeset
61 #elif str($fi.filter.filter_type).endswith('pend_dataset_name'):
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
parents: 12
diff changeset
62 #set $filter_dict = dict()
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
parents: 12
diff changeset
63 #set $filter_dict['filter'] = str($fi.filter.filter_type).replace('dataset_name', 'text')
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
parents: 12
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64 #set $filter_dict['column_text'] = $dataset_name
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
parents: 12
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65 #silent $input_filters.append($filter_dict)
0
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
66 #elif $fi.filter.filter_type == 'normalize':
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
67 #set $filter_dict = dict()
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
68 #set $filter_dict['filter'] = str($fi.filter.filter_type)
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
69 #set $filter_dict['columns'] = [int(str($ci).replace('c','')) for $ci in str($fi.filter.columns).split(',')]
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
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70 #set $filter_dict['separator'] = str($fi.filter.separator)
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
71 #silent $input_filters.append($filter_dict)
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
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72 #end if
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
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73 #end for
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
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74 ]]>
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
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75 </token>
1
fb97505cc3a8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents: 0
diff changeset
76 <token name="@RESULT_HEADER@">
fb97505cc3a8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents: 0
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77 <![CDATA[
fb97505cc3a8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents: 0
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78 #if $query_result.header == 'yes':
fb97505cc3a8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents: 0
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79 #if $query_result.header_prefix:
fb97505cc3a8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents: 0
diff changeset
80 #set $header_prefix = chr(int(str($query_result.header_prefix)))
fb97505cc3a8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents: 0
diff changeset
81 --comment_char='$header_prefix'
fb97505cc3a8 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents: 0
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82 #end if
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83 #else
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84 --no_header
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85 #end if
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86 ]]>
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87 </token>
8
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88 <xml name="requirements">
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89 <requirements>
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90 <requirement type="package" version="3.7">python</requirement>
b85c8fabaf77 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 1647065a8e6e8d8c98cd0d2194b695fb9425f541"
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91 </requirements>
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92 </xml>
1
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93 <xml name="comment_char_options">
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94 <option value="62">&gt;</option>
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95 <option value="64">@</option>
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96 <option value="43">+</option>
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97 <option value="60">&lt;</option>
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98 <option value="42">*</option>
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99 <option value="45">-</option>
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100 <option value="61">=</option>
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101 <option value="124">|</option>
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102 <option value="63">?</option>
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103 <option value="36">$</option>
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104 <option value="46">.</option>
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105 <option value="58">:</option>
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106 <option value="38">&amp;</option>
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107 <option value="37">%</option>
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108 <option value="94">^</option>
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109 <option value="35" selected="true">&#35;</option>
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110 <option value="33">!</option>
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111 </xml>
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112 <xml name="result_results_header_line">
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113 <conditional name="query_result">
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114 <param name="header" type="select" label="include query result column headers">
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115 <option value="yes">Yes</option>
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116 <option value="no">No</option>
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117 </param>
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118 <when value="yes">
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119 <param name="header_prefix" type="select" optional="true" label="Prefix character for column_header line">
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120 <option value="">no comment character prefix</option>
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121 <expand macro="comment_char_options" />
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122 </param>
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123 </when>
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124 <when value="no"/>
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125 </conditional>
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126 </xml>
4
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127 <xml name="sql_query_input">
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128 <param name="sqlquery" type="text" area="true" size="20x80" value="" optional="true" label="SQL Query to generate tabular output">
b0f9d2856b2b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40
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129 <help>By default: tables are named: t1,t2,...,tn and columns in each table: c1,c2,...,cn</help>
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130 <sanitizer sanitize="False"/>
14
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131 <validator type="regex" message="">(?ims)^\s*select\s+.*\s+from\s+.*$</validator>
4
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132 </param>
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133 </xml>
0
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134 <xml name="macro_line_filters">
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135 <repeat name="linefilters" title="Filter Tabular Input Lines">
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136 <conditional name="filter">
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137 <param name="filter_type" type="select" label="Filter By">
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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138 <option value="skip">skip leading lines</option>
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139 <option value="comment">comment char</option>
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140 <option value="regex">by regex expression matching</option>
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141 <option value="select_columns">select columns</option>
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142 <option value="select_column_slices">select columns by indices/slices</option>
0
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143 <option value="replace">regex replace value in column</option>
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144 <option value="prepend_line_num">prepend a line number column</option>
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145 <option value="append_line_num">append a line number column</option>
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146 <option value="prepend_dataset_name">prepend a column with the dataset name</option>
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147 <option value="append_dataset_name">append a column with the dataset name</option>
0
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148 <option value="prepend_text">prepend a column with the given text</option>
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149 <option value="append_text">append a column with the given text</option>
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150 <option value="normalize">normalize list columns, replicates row for each item in list</option>
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151 </param>
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152 <when value="skip">
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153 <param name="skip_lines" type="integer" value="" min="0" optional="true" label="Skip lines"
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154 help="Leave blank to use the comment lines metadata for this dataset" />
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155 </when>
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156 <when value="comment">
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157 <param name="comment_char" type="select" display="checkboxes" multiple="True" label="Ignore lines beginning with these characters" help="lines beginning with these are skipped">
1
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158 <expand macro="comment_char_options" />
0
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159 </param>
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160 </when>
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161 <when value="prepend_line_num"/>
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162 <when value="append_line_num"/>
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163 <when value="prepend_dataset_name"/>
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164 <when value="append_dataset_name"/>
0
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165 <when value="prepend_text">
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166 <param name="column_text" type="text" value="" label="text for column">
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167 </param>
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168 </when>
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169 <when value="append_text">
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170 <param name="column_text" type="text" value="" label="text for column">
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171 </param>
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172 </when>
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173 <when value="regex">
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174 <param name="regex_pattern" type="text" value="" label="regex pattern">
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175 <sanitizer sanitize="False"/>
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176 </param>
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177 <param name="regex_action" type="select" label="action for regex match">
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178 <option value="exclude_match">exclude line on pattern match</option>
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179 <option value="include_match">include line on pattern match</option>
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180 <option value="exclude_find">exclude line if pattern found</option>
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181 <option value="include_find">include line if pattern found</option>
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182 </param>
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183 </when>
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184 <when value="select_columns">
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185 <param name="columns" type="text" value="" label="enter column numbers to keep"
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186 help="example: 1,4,2 or c1,c4,c2(selects the first,fourth, and second columns)">
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187 <validator type="regex" message="Column ordinal positions separated by commas">^(c?[1-9]\d*)(,c?[1-9]\d*)*$</validator>
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188 </param>
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189 </when>
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190 <when value="select_column_slices">
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191 <param name="columns" type="text" value="" label="enter indices or slices of the columns to keep">
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192 <help><![CDATA[ Python offset indexes or slices. Examples:
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193 <ul>
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194 <li>Column offset indexes: 0,3,1 (selects the first,fourth, and second columns)</li>
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195 <li>Negative column numbers: -1,-2 (selects the last, and second last columns)</li>
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196 <li>python slices ( slice(start, stop[, step]) select a range of columns): <li>
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197 <ul>
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198 <li>0:3 or :3 (selects the first 3 columns)</li>
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199 <li>3:5 (selects the fourth and fifth columns)</li>
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200 <li>2: (selects all columns after the second)</li>
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201 <li>-2: (selects the last 2 columns)</li>
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202 <li>2::-1 (selects the first 3 columns n reverse order: third,second,first)</li>
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203 </ul>
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204 </ul>
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205 ]]></help>
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206 <validator type="regex" message="Column ordinal positions separated by commas">^(-?[1-9]\d*|((-?\d+)?:(-?\d*(:-?\d*)?)))(,(-?[1-9]\d*|((-?\d+)?:(-?\d*(:-?\d*)?))))*$</validator>
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207 </param>
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208 </when>
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209
0
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210 <when value="replace">
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211 <param name="column" type="text" value="" label="enter column number to replace"
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212 help="example: 1 or c1 (selects the first column)">
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213 <validator type="regex" message="Column ordinal position">^(c?[1-9]\d*)$</validator>
0
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214 </param>
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215 <param name="regex_pattern" type="text" value="" label="regex pattern">
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216 <sanitizer sanitize="False"/>
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217 </param>
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218 <param name="regex_replace" type="text" value="" label="replacement expression">
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219 <sanitizer sanitize="False"/>
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220 </param>
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221 <param name="add" type="select" optional="true" label="Instead of replacing, Add as new column:">
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222 <option value="prepend">prepend to beginning of row</option>
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223 <option value="append">append to the end of row</option>
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224 <option value="before">insert before column field</option>
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225 <option value="after">insert after column field</option>
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226 </param>
0
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227 </when>
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228 <when value="normalize">
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229 <param name="columns" type="text" value="" label="enter column numbers to normalize">
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230 <help><![CDATA[
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231 example: 2,4 or c2,c4 (selects the second, and fourth columns)
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232 If multiple columns are selected, they should have the same length and separator on each line
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233 ]]></help>
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234 <validator type="regex" message="Column ordinal positions separated by commas">^(c?[1-9]\d*)(,c?[1-9]\d*)*$</validator>
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235 </param>
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236 <param name="separator" type="text" value="," label="List item delimiter in column">
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237 <sanitizer sanitize="False"/>
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238 <validator type="regex" message="Anything but TAB or Newline">^[^\t\n\r\f\v]+$</validator>
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239 </param>
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240 </when>
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241 </conditional>
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242 </repeat>
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243 </xml>
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244
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245 <token name="@LINEFILTERS_HELP@">
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246 <![CDATA[
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247 **Input Line Filters**
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248
13
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249 As a tabular file is being read, line filters may be applied:
0
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250
13
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251 - skip leading lines - skip the first *number* of lines
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252 - comment char - omit any lines that start with the specified comment character
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253 - by regex expression matching - *include/exclude* lines that match the regex expression
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254 - select columns - choose to include only selected columns in the order specified
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
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255 - select columns by indices/slices - *indices or slices* of the columns to keep (python_list_ indexing)
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
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256 - regex replace value in column - replace a field in a column using a regex substitution (good for date reformatting)
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
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257 - regex replace value in column - add a new column using a regex substitution of a column value
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
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258 - prepend a line number column - each line has the *ordinal* value of the line read by this filter as the first column
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
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259 - append a line number column - each line has the *ordinal* value of the line read by this filter as the last column
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
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260 - prepend a text column - each line has the text string as the first column
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
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261 - append a text column - each line has the text string as the last column
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
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262 - prepend the dataset name - each line has the *dataset name* as the first column
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
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263 - append the dataset name - each line has the *dataset name* as the last column
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
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264 - normalize list columns - replicates the line for each item in the specified list *columns*
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
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265
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
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266 .. _python_list: https://docs.python.org/3/library/stdtypes.html#common-sequence-operations
0
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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267 ]]>
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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268 </token>
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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269
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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270 <token name="@LINEFILTERS_HELP_EXAMPLE@">
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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271 <![CDATA[
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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272 **Line Filtering Example**
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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273 *(Six filters are applied as the following file is read)*
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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274
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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275 ::
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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276
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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277 Input Tabular File:
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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278
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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279 #People with pets
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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280 Pets FirstName LastName DOB PetNames PetType
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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281 2 Paula Brown 24/05/78 Rex,Fluff dog,cat
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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282 1 Steven Jones 04/04/74 Allie cat
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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283 0 Jane Doe 24/05/78
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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284 1 James Smith 20/10/80 Spot
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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285
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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286
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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287 Filter 1 - append a line number column:
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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288
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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289 #People with pets 1
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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290 Pets FirstName LastName DOB PetNames PetType 2
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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291 2 Paula Brown 24/05/78 Rex,Fluff dog,cat 3
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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292 1 Steven Jones 04/04/74 Allie cat 4
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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293 0 Jane Doe 24/05/78 5
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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294 1 James Smith 20/10/80 Spot 6
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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295
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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296 Filter 2 - by regex expression matching [include]: '^\d+' (include lines that start with a number)
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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297
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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298 2 Paula Brown 24/05/78 Rex,Fluff dog,cat 3
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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299 1 Steven Jones 04/04/74 Allie cat 4
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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300 0 Jane Doe 24/05/78 5
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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301 1 James Smith 20/10/80 Spot 6
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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302
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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303 Filter 3 - append a line number column:
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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304
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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305 2 Paula Brown 24/05/78 Rex,Fluff dog,cat 3 1
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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306 1 Steven Jones 04/04/74 Allie cat 4 2
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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307 0 Jane Doe 24/05/78 5 3
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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308 1 James Smith 20/10/80 Spot 6 4
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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309
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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310 Filter 4 - regex replace value in column[4]: '(\d+)/(\d+)/(\d+)' '19\3-\2-\1' (convert dates to sqlite format)
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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311
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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312 2 Paula Brown 1978-05-24 Rex,Fluff dog,cat 3 1
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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313 1 Steven Jones 1974-04-04 Allie cat 4 2
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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314 0 Jane Doe 1978-05-24 5 3
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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diff changeset
315 1 James Smith 1980-10-20 Spot 6 4
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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316
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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317 Filter 5 - normalize list columns[5,6]:
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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318
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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319 2 Paula Brown 1978-05-24 Rex dog 3 1
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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320 2 Paula Brown 1978-05-24 Fluff cat 3 1
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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321 1 Steven Jones 1974-04-04 Allie cat 4 2
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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322 0 Jane Doe 1978-05-24 5 3
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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323 1 James Smith 1980-10-20 Spot 6 4
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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324
13
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
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325 Filter 6 - select columns by indices/slices: '1:6'
0
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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326
13
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
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327 Paula Brown 1978-05-24 Rex dog
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
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328 Paula Brown 1978-05-24 Fluff cat
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
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329 Steven Jones 1974-04-04 Allie cat
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
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330 Jane Doe 1978-05-24
26b66c3c5504 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
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331 James Smith 1980-10-20 Spot
0
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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332
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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333 ]]>
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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334 </token>
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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335
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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336 <token name="@QUERY_HELP@">
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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337 <![CDATA[
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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338
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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339 For help in using SQLite_ see: http://www.sqlite.org/docs.html
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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340
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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341 **NOTE:** input for SQLite dates input field must be in the format: *YYYY-MM-DD* for example: 2015-09-30
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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342
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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343 See: http://www.sqlite.org/lang_datefunc.html
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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344
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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345 **Example**
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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346
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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diff changeset
347 Given 2 tabular datasets: *customers* and *sales*
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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348
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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349 Dataset *customers*
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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350
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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diff changeset
351 Table name: "customers"
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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352
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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diff changeset
353 Column names: "CustomerID,FirstName,LastName,Email,DOB,Phone"
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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354
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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355 =========== ========== ========== ===================== ========== ============
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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356 #CustomerID FirstName LastName Email DOB Phone
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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357 =========== ========== ========== ===================== ========== ============
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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diff changeset
358 1 John Smith John.Smith@yahoo.com 1968-02-04 626 222-2222
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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359 2 Steven Goldfish goldfish@fishhere.net 1974-04-04 323 455-4545
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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360 3 Paula Brown pb@herowndomain.org 1978-05-24 416 323-3232
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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361 4 James Smith jim@supergig.co.uk 1980-10-20 416 323-8888
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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362 =========== ========== ========== ===================== ========== ============
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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363
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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364 Dataset *sales*
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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365
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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366 Table name: "sales"
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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367
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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368 Column names: "CustomerID,Date,SaleAmount"
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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369
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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370 ============= ============ ============
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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371 #CustomerID Date SaleAmount
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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372 ============= ============ ============
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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373 2 2004-05-06 100.22
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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374 1 2004-05-07 99.95
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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375 3 2004-05-07 122.95
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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376 3 2004-05-13 100.00
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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377 4 2004-05-22 555.55
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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378 ============= ============ ============
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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379
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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380 The query
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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381
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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382 ::
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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383
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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384 SELECT FirstName,LastName,sum(SaleAmount) as "TotalSales"
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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385 FROM customers join sales on customers.CustomerID = sales.CustomerID
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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386 GROUP BY customers.CustomerID ORDER BY TotalSales DESC;
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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387
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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388 Produces this tabular output:
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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389
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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390 ========== ======== ==========
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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391 #FirstName LastName TotalSales
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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392 ========== ======== ==========
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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393 James Smith 555.55
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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394 Paula Brown 222.95
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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395 Steven Goldfish 100.22
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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396 John Smith 99.95
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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397 ========== ======== ==========
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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398
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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399
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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400 If the optional Table name and Column names inputs are not used, the query would be:
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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401
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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402 ::
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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diff changeset
403
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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404 SELECT t1.c2 as "FirstName", t1.c3 as "LastName", sum(t2.c3) as "TotalSales"
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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405 FROM t1 join t2 on t1.c1 = t2.c1
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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406 GROUP BY t1.c1 ORDER BY TotalSales DESC;
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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407
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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408 You can selectively name columns, e.g. on the customers input you could just name columns 2,3, and 5:
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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409
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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410 Column names: ,FirstName,LastName,,BirthDate
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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411
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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412 Results in the following data base table
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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413
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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414 =========== ========== ========== ===================== ========== ============
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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415 #c1 FirstName LastName c4 BirthDate c6
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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416 =========== ========== ========== ===================== ========== ============
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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417 1 John Smith John.Smith@yahoo.com 1968-02-04 626 222-2222
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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418 2 Steven Goldfish goldfish@fishhere.net 1974-04-04 323 455-4545
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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419 3 Paula Brown pb@herowndomain.org 1978-05-24 416 323-3232
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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420 4 James Smith jim@supergig.co.uk 1980-10-20 416 323-8888
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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421 =========== ========== ========== ===================== ========== ============
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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422
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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423
12
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
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parents: 9
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424
0
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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425 Regular_expression_ functions are included for:
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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426
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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427 ::
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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428
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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429 matching: re_match('pattern',column)
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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diff changeset
430
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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431 SELECT t1.FirstName, t1.LastName
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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diff changeset
432 FROM t1
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
433 WHERE re_match('^.*\.(net|org)$',c4)
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
434
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
435 Results:
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
436
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
437 =========== ==========
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
438 #FirstName LastName
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
439 =========== ==========
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
440 Steven Goldfish
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
441 Paula Brown
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
442 =========== ==========
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
443
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
444
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
445 ::
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
446
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
447 searching: re_search('pattern',column)
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
448 substituting: re_sub('pattern','replacement,column)
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
449
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
450 SELECT t1.FirstName, t1.LastName, re_sub('^\d{2}(\d{2})-(\d\d)-(\d\d)','\3/\2/\1',BirthDate) as "DOB"
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
451 FROM t1
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
452 WHERE re_search('[hp]er',c4)
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
453
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
454 Results:
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
455
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
456
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
457 =========== ========== ==========
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
458 #FirstName LastName DOB
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
459 =========== ========== ==========
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
460 Steven Goldfish 04/04/74
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
461 Paula Brown 24/05/78
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
462 James Smith 20/10/80
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
463 =========== ========== ==========
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
464
12
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
465 Math_ functions *( python math library: https://docs.python.org/3.6/library/math.html )*:
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
466
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
467 acos(x), acosh(x), asin(x), asinh(x), atan(x), atanh(x), atan2(x, y), ceil(x), cos(x), cosh(x), degrees(x), exp(x), expm1(x), fabs(x), floor(x), fmod(x, y), log(b,x), log(x), log10(x), log1p(x), log2(x), mod(x, y), pow(x, y), radians(x), sin(x), sinh(x), sqrt(x), tan(x), tanh(x), trunc(x)
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
468
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
469
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
470 ::
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
471
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
472 Query:
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
473
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
474 SELECT SaleAmount, floor(SaleAmount) as "dollars"
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
475 FROM sales
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
476
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
477 Results:
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
478
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
479 ============ ========
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
480 SaleAmount dollars
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
481 ============ ========
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
482 100.22 100
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
483 99.95 99
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
484 122.95 122
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
485 100.00 100
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
486 555.55 555
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
487 ============ ========
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
488
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
489
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
490 .. _Regular_expression: https://docs.python.org/3.9/library/re.html
f7d8d9b9b197 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
491 .. _Math: https://docs.python.org/3.9/library/math.html
0
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
492 .. _SQLite: http://www.sqlite.org/index.html
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
493 .. _SQLite_functions: http://www.sqlite.org/docs.html
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
494
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
495
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
496 ]]>
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
497 </token>
6
7d675a3e7a7b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 43d0f694b024cf9b1f0e26d803d3f19f38c95ee9
iuc
parents: 4
diff changeset
498 <xml name="citations">
7d675a3e7a7b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 43d0f694b024cf9b1f0e26d803d3f19f38c95ee9
iuc
parents: 4
diff changeset
499 <citations>
7d675a3e7a7b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 43d0f694b024cf9b1f0e26d803d3f19f38c95ee9
iuc
parents: 4
diff changeset
500 <citation type="doi">10.12688/f1000research.16450.1</citation>
7d675a3e7a7b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 43d0f694b024cf9b1f0e26d803d3f19f38c95ee9
iuc
parents: 4
diff changeset
501 <yield />
7d675a3e7a7b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 43d0f694b024cf9b1f0e26d803d3f19f38c95ee9
iuc
parents: 4
diff changeset
502 </citations>
7d675a3e7a7b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 43d0f694b024cf9b1f0e26d803d3f19f38c95ee9
iuc
parents: 4
diff changeset
503 </xml>
7d675a3e7a7b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 43d0f694b024cf9b1f0e26d803d3f19f38c95ee9
iuc
parents: 4
diff changeset
504
0
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
505
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
506 </macros>
c0c0226e1c9c planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
507