Mercurial > repos > iuc > sqlite_to_tabular

annotate macros.xml @ 15:2497be92b79a 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 17:22:29 +0000
parents f0bdd3b9d0d0
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
0
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
1 <macros>
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
2 <token name="@LINEFILTERS@">
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
3 <![CDATA[
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
4 ## set linefilters to the
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
5 #set $input_filters = []
c866ec050312 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:
c866ec050312 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':
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
8 #set $skip_lines = None
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
9 #if str($fi.filter.skip_lines) != '':
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
10 #set $skip_lines = int($fi.filter.skip_lines)
15
2497be92b79a 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:
2497be92b79a 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
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
13 #end if
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
14 #if $skip_lines is not None:
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
15 #set $filter_dict = dict()
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
16 #set $filter_dict['filter'] = str($fi.filter.filter_type)
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
17 #set $filter_dict['count'] = $skip_lines
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
18 #silent $input_filters.append($filter_dict)
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
19 #end if
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
20 #elif $fi.filter.filter_type == 'comment':
c866ec050312 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()
c866ec050312 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'
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
23 #set $filter_dict['pattern'] = '^(%s).*$' % '|'.join([chr(int(x)).replace('|','[|]') for x in (str($fi.filter.comment_char)).split(',')])
c866ec050312 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'
c866ec050312 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)
c866ec050312 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':
c866ec050312 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()
c866ec050312 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)
c866ec050312 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)
c866ec050312 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)
c866ec050312 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)
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
32 #elif $fi.filter.filter_type == 'select_columns':
c866ec050312 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()
c866ec050312 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
e55fbbb17398 "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(',')]
e55fbbb17398 "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)
e55fbbb17398 "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':
e55fbbb17398 "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()
e55fbbb17398 "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)
e55fbbb17398 "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
c866ec050312 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)
c866ec050312 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':
c866ec050312 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()
c866ec050312 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)
c866ec050312 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',''))
c866ec050312 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)
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
47 #set $filter_dict['replace'] = str($fi.filter.regex_replace)
9
f4a9e0e3415d "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit daa9af57fe07ee83a45ddc9f855716f9d14a8e12"
iuc
parents: 8
diff changeset
48 #if $fi.filter.add:
f4a9e0e3415d "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit daa9af57fe07ee83a45ddc9f855716f9d14a8e12"
iuc
parents: 8
diff changeset
49 #set $filter_dict['add'] = str($fi.filter.add)
f4a9e0e3415d "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit daa9af57fe07ee83a45ddc9f855716f9d14a8e12"
iuc
parents: 8
diff changeset
50 #end if
0
c866ec050312 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)
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
52 #elif str($fi.filter.filter_type).endswith('pend_line_num'):
c866ec050312 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()
c866ec050312 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)
c866ec050312 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)
c866ec050312 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'):
c866ec050312 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()
c866ec050312 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)
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
59 #set $filter_dict['column_text'] = str($fi.filter.column_text)
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
60 #silent $input_filters.append($filter_dict)
13
e55fbbb17398 "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'):
e55fbbb17398 "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()
e55fbbb17398 "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')
e55fbbb17398 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
parents: 12
diff changeset
64 #set $filter_dict['column_text'] = $dataset_name
e55fbbb17398 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
parents: 12
diff changeset
65 #silent $input_filters.append($filter_dict)
0
c866ec050312 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':
c866ec050312 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()
c866ec050312 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)
c866ec050312 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(',')]
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
70 #set $filter_dict['separator'] = str($fi.filter.separator)
c866ec050312 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)
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
72 #end if
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
73 #end for
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
74 ]]>
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
75 </token>
1
89d898454f1e 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@">
89d898454f1e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents: 0
diff changeset
77 <![CDATA[
89d898454f1e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents: 0
diff changeset
78 #if $query_result.header == 'yes':
89d898454f1e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents: 0
diff changeset
79 #if $query_result.header_prefix:
89d898454f1e 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)))
89d898454f1e 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'
89d898454f1e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents: 0
diff changeset
82 #end if
89d898454f1e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents: 0
diff changeset
83 #else
89d898454f1e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents: 0
diff changeset
84 --no_header
89d898454f1e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents: 0
diff changeset
85 #end if
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86 ]]>
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87 </token>
8
145ed2c3f763 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 1647065a8e6e8d8c98cd0d2194b695fb9425f541"
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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>
145ed2c3f763 "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">
89d898454f1e planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
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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">
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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">
c866ec050312 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
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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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>
13
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146 <option value="prepend_dataset_name">prepend a column with the dataset name</option>
e55fbbb17398 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
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147 <option value="append_dataset_name">append a column with the dataset name</option>
0
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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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"
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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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"/>
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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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>
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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>
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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
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249 As a tabular file is being read, line filters may be applied:
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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
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255 - select columns by indices/slices - *indices or slices* of the columns to keep (python_list_ indexing)
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256 - regex replace value in column - replace a field in a column using a regex substitution (good for date reformatting)
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257 - regex replace value in column - add a new column using a regex substitution of a column value
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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
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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
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260 - prepend a text column - each line has the text string as the first column
e55fbbb17398 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
parents: 12
diff changeset
261 - append a text column - each line has the text string as the last column
e55fbbb17398 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
parents: 12
diff changeset
262 - prepend the dataset name - each line has the *dataset name* as the first column
e55fbbb17398 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
parents: 12
diff changeset
263 - append the dataset name - each line has the *dataset name* as the last column
e55fbbb17398 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
parents: 12
diff changeset
264 - normalize list columns - replicates the line for each item in the specified list *columns*
e55fbbb17398 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
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265
e55fbbb17398 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
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266 .. _python_list: https://docs.python.org/3/library/stdtypes.html#common-sequence-operations
0
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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267 ]]>
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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268 </token>
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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269
c866ec050312 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@">
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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271 <![CDATA[
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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diff changeset
272 **Line Filtering Example**
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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273 *(Six filters are applied as the following file is read)*
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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274
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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275 ::
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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276
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277 Input Tabular File:
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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278
c866ec050312 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
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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280 Pets FirstName LastName DOB PetNames PetType
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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281 2 Paula Brown 24/05/78 Rex,Fluff dog,cat
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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282 1 Steven Jones 04/04/74 Allie cat
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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283 0 Jane Doe 24/05/78
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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diff changeset
284 1 James Smith 20/10/80 Spot
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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285
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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286
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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287 Filter 1 - append a line number column:
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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288
c866ec050312 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
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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290 Pets FirstName LastName DOB PetNames PetType 2
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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291 2 Paula Brown 24/05/78 Rex,Fluff dog,cat 3
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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292 1 Steven Jones 04/04/74 Allie cat 4
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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293 0 Jane Doe 24/05/78 5
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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294 1 James Smith 20/10/80 Spot 6
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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295
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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296 Filter 2 - by regex expression matching [include]: '^\d+' (include lines that start with a number)
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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297
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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298 2 Paula Brown 24/05/78 Rex,Fluff dog,cat 3
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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299 1 Steven Jones 04/04/74 Allie cat 4
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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300 0 Jane Doe 24/05/78 5
c866ec050312 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
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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302
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303 Filter 3 - append a line number column:
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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304
c866ec050312 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
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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diff changeset
306 1 Steven Jones 04/04/74 Allie cat 4 2
c866ec050312 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
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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diff changeset
308 1 James Smith 20/10/80 Spot 6 4
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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309
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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diff changeset
310 Filter 4 - regex replace value in column[4]: '(\d+)/(\d+)/(\d+)' '19\3-\2-\1' (convert dates to sqlite format)
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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311
c866ec050312 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
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
313 1 Steven Jones 1974-04-04 Allie cat 4 2
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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314 0 Jane Doe 1978-05-24 5 3
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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315 1 James Smith 1980-10-20 Spot 6 4
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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316
c866ec050312 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]:
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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318
c866ec050312 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
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
320 2 Paula Brown 1978-05-24 Fluff cat 3 1
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
321 1 Steven Jones 1974-04-04 Allie cat 4 2
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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322 0 Jane Doe 1978-05-24 5 3
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
323 1 James Smith 1980-10-20 Spot 6 4
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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324
13
e55fbbb17398 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
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325 Filter 6 - select columns by indices/slices: '1:6'
0
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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326
13
e55fbbb17398 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
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327 Paula Brown 1978-05-24 Rex dog
e55fbbb17398 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
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328 Paula Brown 1978-05-24 Fluff cat
e55fbbb17398 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
parents: 12
diff changeset
329 Steven Jones 1974-04-04 Allie cat
e55fbbb17398 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
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diff changeset
330 Jane Doe 1978-05-24
e55fbbb17398 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 35576d64a12fa664d72559172c5960c09da2b632"
iuc
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331 James Smith 1980-10-20 Spot
0
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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332
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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333 ]]>
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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334 </token>
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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335
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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336 <token name="@QUERY_HELP@">
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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337 <![CDATA[
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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338
c866ec050312 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
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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340
c866ec050312 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
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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342
c866ec050312 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
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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344
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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345 **Example**
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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346
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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347 Given 2 tabular datasets: *customers* and *sales*
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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348
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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349 Dataset *customers*
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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350
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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351 Table name: "customers"
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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352
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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353 Column names: "CustomerID,FirstName,LastName,Email,DOB,Phone"
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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diff changeset
354
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
355 =========== ========== ========== ===================== ========== ============
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
356 #CustomerID FirstName LastName Email DOB Phone
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
357 =========== ========== ========== ===================== ========== ============
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
358 1 John Smith John.Smith@yahoo.com 1968-02-04 626 222-2222
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
359 2 Steven Goldfish goldfish@fishhere.net 1974-04-04 323 455-4545
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
360 3 Paula Brown pb@herowndomain.org 1978-05-24 416 323-3232
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
361 4 James Smith jim@supergig.co.uk 1980-10-20 416 323-8888
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
362 =========== ========== ========== ===================== ========== ============
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
363
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
364 Dataset *sales*
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
365
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
366 Table name: "sales"
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
367
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
368 Column names: "CustomerID,Date,SaleAmount"
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
369
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
370 ============= ============ ============
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
371 #CustomerID Date SaleAmount
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
372 ============= ============ ============
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
373 2 2004-05-06 100.22
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
374 1 2004-05-07 99.95
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
375 3 2004-05-07 122.95
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
376 3 2004-05-13 100.00
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
377 4 2004-05-22 555.55
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
378 ============= ============ ============
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
379
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
380 The query
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
381
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
382 ::
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
383
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
384 SELECT FirstName,LastName,sum(SaleAmount) as "TotalSales"
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
385 FROM customers join sales on customers.CustomerID = sales.CustomerID
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
386 GROUP BY customers.CustomerID ORDER BY TotalSales DESC;
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
387
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
388 Produces this tabular output:
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
389
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
390 ========== ======== ==========
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
391 #FirstName LastName TotalSales
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
392 ========== ======== ==========
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
393 James Smith 555.55
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
394 Paula Brown 222.95
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
395 Steven Goldfish 100.22
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
396 John Smith 99.95
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
397 ========== ======== ==========
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
398
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
399
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
400 If the optional Table name and Column names inputs are not used, the query would be:
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
401
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
402 ::
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
403
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
404 SELECT t1.c2 as "FirstName", t1.c3 as "LastName", sum(t2.c3) as "TotalSales"
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
405 FROM t1 join t2 on t1.c1 = t2.c1
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
406 GROUP BY t1.c1 ORDER BY TotalSales DESC;
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
407
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
408 You can selectively name columns, e.g. on the customers input you could just name columns 2,3, and 5:
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
409
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
410 Column names: ,FirstName,LastName,,BirthDate
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
411
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
412 Results in the following data base table
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
413
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
414 =========== ========== ========== ===================== ========== ============
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
415 #c1 FirstName LastName c4 BirthDate c6
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
416 =========== ========== ========== ===================== ========== ============
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
417 1 John Smith John.Smith@yahoo.com 1968-02-04 626 222-2222
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
418 2 Steven Goldfish goldfish@fishhere.net 1974-04-04 323 455-4545
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
419 3 Paula Brown pb@herowndomain.org 1978-05-24 416 323-3232
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
420 4 James Smith jim@supergig.co.uk 1980-10-20 416 323-8888
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
421 =========== ========== ========== ===================== ========== ============
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
422
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
423
12
755242733259 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
424
0
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
425 Regular_expression_ functions are included for:
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
426
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
427 ::
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
428
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
429 matching: re_match('pattern',column)
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
430
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
431 SELECT t1.FirstName, t1.LastName
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
432 FROM t1
c866ec050312 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)
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
434
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
435 Results:
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
436
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
437 =========== ==========
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
438 #FirstName LastName
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
439 =========== ==========
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
440 Steven Goldfish
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
441 Paula Brown
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
442 =========== ==========
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
443
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
444
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
445 ::
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
446
c866ec050312 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)
c866ec050312 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)
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
449
c866ec050312 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"
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
451 FROM t1
c866ec050312 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)
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
453
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
454 Results:
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
455
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
456
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
457 =========== ========== ==========
c866ec050312 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
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
459 =========== ========== ==========
c866ec050312 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
c866ec050312 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
c866ec050312 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
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
463 =========== ========== ==========
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
464
12
755242733259 "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 )*:
755242733259 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
466
755242733259 "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)
755242733259 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
468
755242733259 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
469
755242733259 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
470 ::
755242733259 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
471
755242733259 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
472 Query:
755242733259 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
473
755242733259 "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"
755242733259 "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
755242733259 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
476
755242733259 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
477 Results:
755242733259 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
478
755242733259 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
479 ============ ========
755242733259 "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
755242733259 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
481 ============ ========
755242733259 "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
755242733259 "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
755242733259 "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
755242733259 "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
755242733259 "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
755242733259 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
487 ============ ========
755242733259 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
488
755242733259 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"
iuc
parents: 9
diff changeset
489
755242733259 "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
755242733259 "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
c866ec050312 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
c866ec050312 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
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
494
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
495
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
496 ]]>
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
497 </token>
6
27625fe9f33b 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">
27625fe9f33b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 43d0f694b024cf9b1f0e26d803d3f19f38c95ee9
iuc
parents: 4
diff changeset
499 <citations>
27625fe9f33b 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>
27625fe9f33b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 43d0f694b024cf9b1f0e26d803d3f19f38c95ee9
iuc
parents: 4
diff changeset
501 <yield />
27625fe9f33b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 43d0f694b024cf9b1f0e26d803d3f19f38c95ee9
iuc
parents: 4
diff changeset
502 </citations>
27625fe9f33b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 43d0f694b024cf9b1f0e26d803d3f19f38c95ee9
iuc
parents: 4
diff changeset
503 </xml>
27625fe9f33b planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 43d0f694b024cf9b1f0e26d803d3f19f38c95ee9
iuc
parents: 4
diff changeset
504
0
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
505
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
506 </macros>
c866ec050312 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff changeset
507