Mercurial > repos > iuc > sqlite_to_tabular
annotate macros.xml @ 6:fe5036ccfdc3 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 43d0f694b024cf9b1f0e26d803d3f19f38c95ee9
| author | iuc |
|---|---|
| date | Fri, 05 Oct 2018 09:40:49 -0400 |
| parents | 6e72fd26a9d3 |
| children | 5a4ae7678bc5 |
| rev | line source |
|---|---|
|
0
859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
|
1 <macros> |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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2 <token name="@LINEFILTERS@"> |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
|
3 <![CDATA[ |
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859064f07be4
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 |
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859064f07be4
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 = [] |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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6 #for $fi in $linefilters: |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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7 #if $fi.filter.filter_type == 'skip': |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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8 #set $skip_lines = None |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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9 #if str($fi.filter.skip_lines) != '': |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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10 #set $skip_lines = int($fi.filter.skip_lines) |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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11 #elif $tbl.table.metadata.comment_lines and $tbl.table.metadata.comment_lines > 0: |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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12 #set $skip_lines = int($tbl.table.metadata.comment_lines) |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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13 #end if |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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14 #if $skip_lines is not None: |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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15 #set $filter_dict = dict() |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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16 #set $filter_dict['filter'] = str($fi.filter.filter_type) |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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17 #set $filter_dict['count'] = $skip_lines |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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18 #silent $input_filters.append($filter_dict) |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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19 #end if |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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20 #elif $fi.filter.filter_type == 'comment': |
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859064f07be4
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() |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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22 #set $filter_dict['filter'] = 'regex' |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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23 #set $filter_dict['pattern'] = '^(%s).*$' % '|'.join([chr(int(x)).replace('|','[|]') for x in (str($fi.filter.comment_char)).split(',')]) |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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24 #set $filter_dict['action'] = 'exclude_match' |
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859064f07be4
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) |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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26 #elif $fi.filter.filter_type == 'regex': |
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859064f07be4
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() |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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28 #set $filter_dict['filter'] = str($fi.filter.filter_type) |
|
859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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29 #set $filter_dict['pattern'] = str($fi.filter.regex_pattern) |
|
859064f07be4
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) |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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31 #silent $input_filters.append($filter_dict) |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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32 #elif $fi.filter.filter_type == 'select_columns': |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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33 #set $filter_dict = dict() |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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34 #set $filter_dict['filter'] = str($fi.filter.filter_type) |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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35 #set $filter_dict['columns'] = [int(str($ci).replace('c','')) for $ci in str($fi.filter.columns).split(',')] |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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36 #silent $input_filters.append($filter_dict) |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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37 #elif $fi.filter.filter_type == 'replace': |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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38 #set $filter_dict = dict() |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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39 #set $filter_dict['filter'] = str($fi.filter.filter_type) |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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40 #set $filter_dict['column'] = int(str($fi.filter.column).replace('c','')) |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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41 #set $filter_dict['pattern'] = str($fi.filter.regex_pattern) |
|
859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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42 #set $filter_dict['replace'] = str($fi.filter.regex_replace) |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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43 #silent $input_filters.append($filter_dict) |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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44 #elif str($fi.filter.filter_type).endswith('pend_line_num'): |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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45 #set $filter_dict = dict() |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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46 #set $filter_dict['filter'] = str($fi.filter.filter_type) |
|
859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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47 #silent $input_filters.append($filter_dict) |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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48 #elif str($fi.filter.filter_type).endswith('pend_text'): |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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49 #set $filter_dict = dict() |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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50 #set $filter_dict['filter'] = str($fi.filter.filter_type) |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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51 #set $filter_dict['column_text'] = str($fi.filter.column_text) |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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52 #silent $input_filters.append($filter_dict) |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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53 #elif $fi.filter.filter_type == 'normalize': |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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54 #set $filter_dict = dict() |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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55 #set $filter_dict['filter'] = str($fi.filter.filter_type) |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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56 #set $filter_dict['columns'] = [int(str($ci).replace('c','')) for $ci in str($fi.filter.columns).split(',')] |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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57 #set $filter_dict['separator'] = str($fi.filter.separator) |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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58 #silent $input_filters.append($filter_dict) |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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59 #end if |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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60 #end for |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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61 ]]> |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
diff
changeset
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62 </token> |
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1
c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents:
0
diff
changeset
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63 <token name="@RESULT_HEADER@"> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents:
0
diff
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64 <![CDATA[ |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents:
0
diff
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65 #if $query_result.header == 'yes': |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents:
0
diff
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66 #if $query_result.header_prefix: |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents:
0
diff
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67 #set $header_prefix = chr(int(str($query_result.header_prefix))) |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents:
0
diff
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68 --comment_char='$header_prefix' |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents:
0
diff
changeset
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69 #end if |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents:
0
diff
changeset
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70 #else |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents:
0
diff
changeset
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71 --no_header |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents:
0
diff
changeset
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72 #end if |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents:
0
diff
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73 ]]> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents:
0
diff
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74 </token> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents:
0
diff
changeset
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75 <xml name="comment_char_options"> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
parents:
0
diff
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76 <option value="62">></option> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
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77 <option value="64">@</option> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
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78 <option value="43">+</option> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
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79 <option value="60"><</option> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
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diff
changeset
|
80 <option value="42">*</option> |
|
c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
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81 <option value="45">-</option> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
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82 <option value="61">=</option> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
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changeset
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83 <option value="124">|</option> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
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84 <option value="63">?</option> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
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diff
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85 <option value="36">$</option> |
|
c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
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changeset
|
86 <option value="46">.</option> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
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87 <option value="58">:</option> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
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88 <option value="38">&</option> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
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changeset
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89 <option value="37">%</option> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
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90 <option value="94">^</option> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
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91 <option value="35" selected="true">#</option> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
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92 <option value="33">!</option> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
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93 </xml> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
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94 <xml name="result_results_header_line"> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
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95 <conditional name="query_result"> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
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96 <param name="header" type="select" label="include query result column headers"> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
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97 <option value="yes">Yes</option> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
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98 <option value="no">No</option> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
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99 </param> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
iuc
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100 <when value="yes"> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
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101 <param name="header_prefix" type="select" optional="true" label="Prefix character for column_header line"> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
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102 <option value="">no comment character prefix</option> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
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103 <expand macro="comment_char_options" /> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
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104 </param> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
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105 </when> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
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106 <when value="no"/> |
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c1b700bc0150
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
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107 </conditional> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
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108 </xml> |
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4
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40
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109 <xml name="sql_query_input"> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40
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110 <param name="sqlquery" type="text" area="true" size="20x80" value="" optional="true" label="SQL Query to generate tabular output"> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40
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111 <help>By default: tables are named: t1,t2,...,tn and columns in each table: c1,c2,...,cn</help> |
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6e72fd26a9d3
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40
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112 <sanitizer sanitize="False"/> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40
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113 <validator type="regex" message="">^(?ims)\s*select\s+.*\s+from\s+.*$</validator> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40
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114 </param> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40
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115 </xml> |
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0
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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116 <xml name="macro_line_filters"> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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117 <repeat name="linefilters" title="Filter Tabular Input Lines"> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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118 <conditional name="filter"> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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119 <param name="filter_type" type="select" label="Filter By"> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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120 <option value="skip">skip leading lines</option> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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121 <option value="comment">comment char</option> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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122 <option value="regex">by regex expression matching</option> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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123 <option value="select_columns">select columns</option> |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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124 <option value="replace">regex replace value in column</option> |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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125 <option value="prepend_line_num">prepend a line number column</option> |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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126 <option value="append_line_num">append a line number column</option> |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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127 <option value="prepend_text">prepend a column with the given text</option> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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128 <option value="append_text">append a column with the given text</option> |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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129 <option value="normalize">normalize list columns, replicates row for each item in list</option> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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130 </param> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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131 <when value="skip"> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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132 <param name="skip_lines" type="integer" value="" min="0" optional="true" label="Skip lines" |
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133 help="Leave blank to use the comment lines metadata for this dataset" /> |
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134 </when> |
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135 <when value="comment"> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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136 <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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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845
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137 <expand macro="comment_char_options" /> |
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0
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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138 </param> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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139 </when> |
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140 <when value="prepend_line_num"/> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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141 <when value="append_line_num"/> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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142 <when value="prepend_text"> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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143 <param name="column_text" type="text" value="" label="text for column"> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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144 </param> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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145 </when> |
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146 <when value="append_text"> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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147 <param name="column_text" type="text" value="" label="text for column"> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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148 </param> |
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149 </when> |
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150 <when value="regex"> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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151 <param name="regex_pattern" type="text" value="" label="regex pattern"> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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152 <sanitizer sanitize="False"/> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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153 </param> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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154 <param name="regex_action" type="select" label="action for regex match"> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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155 <option value="exclude_match">exclude line on pattern match</option> |
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156 <option value="include_match">include line on pattern match</option> |
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157 <option value="exclude_find">exclude line if pattern found</option> |
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158 <option value="include_find">include line if pattern found</option> |
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159 </param> |
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160 </when> |
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161 <when value="select_columns"> |
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162 <param name="columns" type="text" value="" label="enter column numbers to keep" |
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163 help="example: 1,4,2 or c1,c4,c2(selects the first,fourth, and second columns)"> |
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164 <validator type="regex" message="Column ordinal positions separated by commas">^(c?[1-9]\d*)(,c?[1-9]\d*)*$</validator> |
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165 </param> |
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166 </when> |
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167 <when value="replace"> |
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168 <param name="column" type="text" value="" label="enter column number to replace" |
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169 help="example: 1 or c1 (selects the first column)"> |
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170 <validator type="regex" message="Column ordinal position separated by commas">^(c?[1-9]\d*)$</validator> |
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171 </param> |
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172 <param name="regex_pattern" type="text" value="" label="regex pattern"> |
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173 <sanitizer sanitize="False"/> |
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174 </param> |
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175 <param name="regex_replace" type="text" value="" label="replacement expression"> |
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176 <sanitizer sanitize="False"/> |
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177 </param> |
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178 </when> |
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179 <when value="normalize"> |
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180 <param name="columns" type="text" value="" label="enter column numbers to normalize"> |
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181 <help><![CDATA[ |
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182 example: 2,4 or c2,c4 (selects the second, and fourth columns) |
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183 If multiple columns are selected, they should have the same length and separator on each line |
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184 ]]></help> |
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185 <validator type="regex" message="Column ordinal positions separated by commas">^(c?[1-9]\d*)(,c?[1-9]\d*)*$</validator> |
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186 </param> |
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187 <param name="separator" type="text" value="," label="List item delimiter in column"> |
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188 <sanitizer sanitize="False"/> |
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189 <validator type="regex" message="Anything but TAB or Newline">^[^\t\n\r\f\v]+$</validator> |
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190 </param> |
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191 </when> |
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192 </conditional> |
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193 </repeat> |
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194 </xml> |
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195 |
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196 <token name="@LINEFILTERS_HELP@"> |
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197 <![CDATA[ |
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198 **Input Line Filters** |
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199 |
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200 As a tabular file is being read, line filters may be applied. |
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201 |
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202 :: |
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203 |
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204 - skip leading lines skip the first *number* of lines |
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205 - comment char omit any lines that start with the specified comment character |
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206 - by regex expression matching *include/exclude* lines the match the regex expression |
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207 - select columns choose to include only selected columns in the order specified |
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208 - regex replace value in column replace a field in a column using a regex substitution (good for date reformatting) |
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209 - 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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210 - 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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211 - prepend a text column each line has the text string as the first column |
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212 - append a text column each line has the text string as the last column |
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213 - normalize list columns replicates the line for each item in the specified list *columns* |
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214 ]]> |
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215 </token> |
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216 |
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217 <token name="@LINEFILTERS_HELP_EXAMPLE@"> |
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218 <![CDATA[ |
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219 **Line Filtering Example** |
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220 *(Six filters are applied as the following file is read)* |
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221 |
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222 :: |
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223 |
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224 Input Tabular File: |
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225 |
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226 #People with pets |
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227 Pets FirstName LastName DOB PetNames PetType |
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228 2 Paula Brown 24/05/78 Rex,Fluff dog,cat |
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229 1 Steven Jones 04/04/74 Allie cat |
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230 0 Jane Doe 24/05/78 |
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231 1 James Smith 20/10/80 Spot |
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232 |
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233 |
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234 Filter 1 - append a line number column: |
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235 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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236 #People with pets 1 |
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237 Pets FirstName LastName DOB PetNames PetType 2 |
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238 2 Paula Brown 24/05/78 Rex,Fluff dog,cat 3 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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239 1 Steven Jones 04/04/74 Allie cat 4 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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240 0 Jane Doe 24/05/78 5 |
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241 1 James Smith 20/10/80 Spot 6 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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242 |
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243 Filter 2 - by regex expression matching [include]: '^\d+' (include lines that start with a number) |
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244 |
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245 2 Paula Brown 24/05/78 Rex,Fluff dog,cat 3 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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246 1 Steven Jones 04/04/74 Allie cat 4 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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247 0 Jane Doe 24/05/78 5 |
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248 1 James Smith 20/10/80 Spot 6 |
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249 |
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250 Filter 3 - append a line number column: |
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251 |
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252 2 Paula Brown 24/05/78 Rex,Fluff dog,cat 3 1 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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253 1 Steven Jones 04/04/74 Allie cat 4 2 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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254 0 Jane Doe 24/05/78 5 3 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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255 1 James Smith 20/10/80 Spot 6 4 |
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256 |
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257 Filter 4 - regex replace value in column[4]: '(\d+)/(\d+)/(\d+)' '19\3-\2-\1' (convert dates to sqlite format) |
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258 |
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259 2 Paula Brown 1978-05-24 Rex,Fluff dog,cat 3 1 |
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260 1 Steven Jones 1974-04-04 Allie cat 4 2 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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261 0 Jane Doe 1978-05-24 5 3 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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262 1 James Smith 1980-10-20 Spot 6 4 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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263 |
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264 Filter 5 - normalize list columns[5,6]: |
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265 |
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266 2 Paula Brown 1978-05-24 Rex dog 3 1 |
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267 2 Paula Brown 1978-05-24 Fluff cat 3 1 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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268 1 Steven Jones 1974-04-04 Allie cat 4 2 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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269 0 Jane Doe 1978-05-24 5 3 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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270 1 James Smith 1980-10-20 Spot 6 4 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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271 |
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272 Filter 6 - append a line number column: |
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273 |
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274 2 Paula Brown 1978-05-24 Rex dog 3 1 1 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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275 2 Paula Brown 1978-05-24 Fluff cat 3 1 2 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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276 1 Steven Jones 1974-04-04 Allie cat 4 2 3 |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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277 0 Jane Doe 1978-05-24 5 3 4 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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278 1 James Smith 1980-10-20 Spot 6 4 5 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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279 |
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280 ]]> |
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281 </token> |
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282 |
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283 <token name="@QUERY_HELP@"> |
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284 <![CDATA[ |
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285 |
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286 For help in using SQLite_ see: http://www.sqlite.org/docs.html |
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287 |
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288 **NOTE:** input for SQLite dates input field must be in the format: *YYYY-MM-DD* for example: 2015-09-30 |
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289 |
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290 See: http://www.sqlite.org/lang_datefunc.html |
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291 |
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292 **Example** |
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293 |
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294 Given 2 tabular datasets: *customers* and *sales* |
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295 |
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296 Dataset *customers* |
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297 |
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298 Table name: "customers" |
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299 |
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300 Column names: "CustomerID,FirstName,LastName,Email,DOB,Phone" |
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301 |
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302 =========== ========== ========== ===================== ========== ============ |
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303 #CustomerID FirstName LastName Email DOB Phone |
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304 =========== ========== ========== ===================== ========== ============ |
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305 1 John Smith John.Smith@yahoo.com 1968-02-04 626 222-2222 |
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306 2 Steven Goldfish goldfish@fishhere.net 1974-04-04 323 455-4545 |
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307 3 Paula Brown pb@herowndomain.org 1978-05-24 416 323-3232 |
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308 4 James Smith jim@supergig.co.uk 1980-10-20 416 323-8888 |
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309 =========== ========== ========== ===================== ========== ============ |
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310 |
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311 Dataset *sales* |
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312 |
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313 Table name: "sales" |
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314 |
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315 Column names: "CustomerID,Date,SaleAmount" |
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316 |
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317 ============= ============ ============ |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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318 #CustomerID Date SaleAmount |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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319 ============= ============ ============ |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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320 2 2004-05-06 100.22 |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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321 1 2004-05-07 99.95 |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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322 3 2004-05-07 122.95 |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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323 3 2004-05-13 100.00 |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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324 4 2004-05-22 555.55 |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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325 ============= ============ ============ |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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326 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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327 The query |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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328 |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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329 :: |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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330 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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331 SELECT FirstName,LastName,sum(SaleAmount) as "TotalSales" |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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332 FROM customers join sales on customers.CustomerID = sales.CustomerID |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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333 GROUP BY customers.CustomerID ORDER BY TotalSales DESC; |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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334 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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335 Produces this tabular output: |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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336 |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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337 ========== ======== ========== |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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338 #FirstName LastName TotalSales |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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339 ========== ======== ========== |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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340 James Smith 555.55 |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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341 Paula Brown 222.95 |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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342 Steven Goldfish 100.22 |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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343 John Smith 99.95 |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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344 ========== ======== ========== |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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345 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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346 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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347 If the optional Table name and Column names inputs are not used, the query would be: |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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348 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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349 :: |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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350 |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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351 SELECT t1.c2 as "FirstName", t1.c3 as "LastName", sum(t2.c3) as "TotalSales" |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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352 FROM t1 join t2 on t1.c1 = t2.c1 |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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353 GROUP BY t1.c1 ORDER BY TotalSales DESC; |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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354 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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355 You can selectively name columns, e.g. on the customers input you could just name columns 2,3, and 5: |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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356 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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357 Column names: ,FirstName,LastName,,BirthDate |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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358 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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359 Results in the following data base table |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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360 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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361 =========== ========== ========== ===================== ========== ============ |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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362 #c1 FirstName LastName c4 BirthDate c6 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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363 =========== ========== ========== ===================== ========== ============ |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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364 1 John Smith John.Smith@yahoo.com 1968-02-04 626 222-2222 |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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365 2 Steven Goldfish goldfish@fishhere.net 1974-04-04 323 455-4545 |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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366 3 Paula Brown pb@herowndomain.org 1978-05-24 416 323-3232 |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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367 4 James Smith jim@supergig.co.uk 1980-10-20 416 323-8888 |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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368 =========== ========== ========== ===================== ========== ============ |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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369 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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370 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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371 Regular_expression_ functions are included for: |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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372 |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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373 :: |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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374 |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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375 matching: re_match('pattern',column) |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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376 |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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377 SELECT t1.FirstName, t1.LastName |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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378 FROM t1 |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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379 WHERE re_match('^.*\.(net|org)$',c4) |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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|
380 |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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381 Results: |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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382 |
|
859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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383 =========== ========== |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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384 #FirstName LastName |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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385 =========== ========== |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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386 Steven Goldfish |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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387 Paula Brown |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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388 =========== ========== |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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changeset
|
389 |
|
859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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changeset
|
390 |
|
859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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391 :: |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
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changeset
|
392 |
|
859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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|
393 searching: re_search('pattern',column) |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
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changeset
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394 substituting: re_sub('pattern','replacement,column) |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
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changeset
|
395 |
|
859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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396 SELECT t1.FirstName, t1.LastName, re_sub('^\d{2}(\d{2})-(\d\d)-(\d\d)','\3/\2/\1',BirthDate) as "DOB" |
|
859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
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changeset
|
397 FROM t1 |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
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changeset
|
398 WHERE re_search('[hp]er',c4) |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
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changeset
|
399 |
|
859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
iuc
parents:
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|
400 Results: |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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403 =========== ========== ========== |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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404 #FirstName LastName DOB |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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405 =========== ========== ========== |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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406 Steven Goldfish 04/04/74 |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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407 Paula Brown 24/05/78 |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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408 James Smith 20/10/80 |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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409 =========== ========== ========== |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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411 .. _Regular_expression: https://docs.python.org/release/2.7/library/re.html |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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412 .. _SQLite: http://www.sqlite.org/index.html |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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413 .. _SQLite_functions: http://www.sqlite.org/docs.html |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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416 ]]> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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417 </token> |
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6
fe5036ccfdc3
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 43d0f694b024cf9b1f0e26d803d3f19f38c95ee9
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418 <xml name="citations"> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 43d0f694b024cf9b1f0e26d803d3f19f38c95ee9
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419 <citations> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 43d0f694b024cf9b1f0e26d803d3f19f38c95ee9
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420 <citation type="doi">10.12688/f1000research.16450.1</citation> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 43d0f694b024cf9b1f0e26d803d3f19f38c95ee9
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421 <yield /> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 43d0f694b024cf9b1f0e26d803d3f19f38c95ee9
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422 </citations> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 43d0f694b024cf9b1f0e26d803d3f19f38c95ee9
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423 </xml> |
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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 43d0f694b024cf9b1f0e26d803d3f19f38c95ee9
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424 |
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0
859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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425 |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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426 </macros> |
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859064f07be4
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d
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427 |