query_tabular: query_tabular.xml annotate

annotate query_tabular.xml @ 12:504f24a8eb76 draft

"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11"

author	iuc
date	Sat, 19 Jun 2021 14:13:01 +0000
parents	b6100c4d40e0
children	b972f6137887

rev	line source
12 504f24a8eb76 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11" iuc parents: 11 diff changeset	1 <tool id="query_tabular" name="Query Tabular" version="3.2.0">
0 81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	2 <description>using sqlite sql</description>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	3
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	4 <macros>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	5 <import>macros.xml</import>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	6 </macros>
8 5c3d86bc259c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 1647065a8e6e8d8c98cd0d2194b695fb9425f541" iuc parents: 6 diff changeset	7 <expand macro="requirements"/>
0 81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	8 <command detect_errors="exit_code"><![CDATA[
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	9 cat '$query_file' &&
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	10 #if $add_to_database.withdb:
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	11 #if $save_db:
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	12 cp '$add_to_database.withdb' '$sqlitedb' &&
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	13 #else:
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	14 cp '$add_to_database.withdb' '$workdb' &&
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	15 #end if
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	16 #end if
4 7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	17 python '$__tool_directory__/query_tabular.py' -d
0 81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	18 #if $save_db
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	19 -s '$sqlitedb'
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	20 #else
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	21 -s '$workdb'
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	22 #end if
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	23 -j '$table_json'
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	24 #if $sqlquery:
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	25 -Q '$query_file'
1 53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	26 @RESULT_HEADER@
0 81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	27 -o '$output'
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	28 #end if
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	29 ]]></command>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	30 <configfiles>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	31 <configfile name="query_file">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	32 $sqlquery
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	33 </configfile>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	34 <configfile name="table_json">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	35 #import json
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	36 #set $jtbldef = dict()
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	37 #set $jtbls = []
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	38 #set $jtbldef['tables'] = $jtbls
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	39 #for $i,$tbl in enumerate($tables):
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	40 #set $jtbl = dict()
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	41 #set $jtbl['file_path'] = str($tbl.table)
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	42 #if $tbl.tbl_opts.table_name:
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	43 #set $tname = str($tbl.tbl_opts.table_name)
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	44 #else
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	45 #set $tname = 't' + str($i + 1)
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	46 #end if
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	47 #set $jtbl['table_name'] = $tname
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	48 ## #if $tbl.tbl_opts.sel_cols:
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	49 ## #set $jtbl['sel_cols'] = $tbl.tbl_opts.sel_cols el_cols
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	50 ## #end if
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	51 #if $tbl.tbl_opts.pkey_autoincr:
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	52 #set $jtbl['pkey_autoincr'] = str($tbl.tbl_opts.pkey_autoincr)
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	53 #end if
1 53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	54 #if $tbl.tbl_opts.column_names_from_first_line:
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	55 #set $jtbl['firstlinenames'] = True
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	56 #end if
0 81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	57 #if $tbl.tbl_opts.col_names:
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	58 #set $col_names = str($tbl.tbl_opts.col_names)
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	59 #if $tbl.tbl_opts.load_named_columns:
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	60 #set $jtbl['load_named_columns'] = True
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	61 #end if
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	62 #else
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	63 #set $col_names = ''
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	64 #end if
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	65 #set $jtbl['column_names'] = $col_names
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	66 #set $idx_unique = []
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	67 #set $idx_non = []
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	68 #for $idx in $tbl.tbl_opts.indexes:
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	69 #if $idx.unique:
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	70 #silent $idx_unique.append(str($idx.index_columns))
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	71 #else:
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	72 #silent $idx_non.append(str($idx.index_columns))
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	73 #end if
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	74 #end for
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	75 #if len($idx_unique) > 0:
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	76 #set $jtbl['unique'] = $idx_unique
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	77 #end if
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	78 #if len($idx_non) > 0:
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	79 #set $jtbl['index'] = $idx_non
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	80 #end if
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	81 #set $linefilters = $tbl.input_opts.linefilters
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	82 @LINEFILTERS@
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	83 #if $input_filters:
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	84 #set $jtbl['filters'] = $input_filters
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	85 #end if
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	86 #set $jtbls += [$jtbl]
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	87 #end for
4 7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	88 #set $jstmts = []
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	89 #for $i,$stmt in enumerate($modify_database.sql_stmts):
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	90 #set $jstmts += [str($stmt.sqlstmt)]
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	91 #end for
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	92 #if len($jstmts) > 0:
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	93 #set $jtbldef['sql_stmts'] = $jstmts
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	94 #end if
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	95 #set $jqueries = []
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	96 #for $i,$query in enumerate($addqueries.queries):
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	97 #set $jquery = dict()
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	98 #set $jquery['query'] = str($query.sqlquery)
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	99 #set $jquery['result_file'] = 'results' + str($i) + '.tsv'
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	100 #if $query.query_result.header == 'yes':
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	101 #set $header_prefix = ''
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	102 #if $query.query_result.header_prefix:
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	103 #set $header_prefix = chr(int(str($query.query_result.header_prefix)))
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	104 #end if
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	105 #set $jquery['header'] = $header_prefix
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	106 #end if
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	107 #set $jqueries += [$jquery]
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	108 #end for
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	109 #if len($jqueries) > 0:
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	110 #set $jtbldef['queries'] = $jqueries
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	111 #end if
0 81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	112 #echo $json.dumps($jtbldef)
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	113 </configfile>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	114 </configfiles>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	115 <inputs>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	116 <param name="workdb" type="hidden" value="workdb.sqlite" label=""/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	117 <section name="add_to_database" expanded="false" title="Add tables to an existing database">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	118 <param name="withdb" type="data" format="sqlite" optional="true" label="Add tables to this Database"
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	119 help="Make sure your added table names are not already in this database"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	120 </section>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	121 <repeat name="tables" title="Database Table" min="0">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	122 <param name="table" type="data" format="tabular" label="Tabular Dataset for Table"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	123 <section name="input_opts" expanded="false" title="Filter Dataset Input">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	124 <expand macro="macro_line_filters" />
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	125 </section>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	126 <section name="tbl_opts" expanded="false" title="Table Options">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	127 <param name="table_name" type="text" value="" optional="true" label="Specify Name for Table">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	128 <help>By default, tables will be named: t1,t2,...,tn (table names must be unique)</help>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	129 <validator type="regex" message="Table name should start with a letter and may contain additional letters, digits, and underscores">^[A-Za-z]\w*$</validator>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	130 </param>
1 53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	131 <param name="column_names_from_first_line" type="boolean" truevalue="True" falsevalue="False" checked="false"
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	132 label="Use first line as column names"
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	133 help="The names will be quoted if they are not valid SQLite column names."/>
0 81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	134 <param name="col_names" type="text" value="" optional="true" label="Specify Column Names (comma-separated list)">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	135 <help>By default, table columns will be named: c1,c2,c3,...,cn (column names for a table must be unique)
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	136 You can override the default names by entering a comma -separated list of names, e.g. ',name1,,,name2' would rename the second and fifth columns.
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	137 </help>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	138 <sanitizer sanitize="False"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	139 <validator type="regex" message="A List of names separated by commas: Column names should start with a letter and may contain additional letters, digits, and underscores. Otherwise, the name must be eclosed in: double quotes, back quotes, or square brackets.">^([A-Za-z]\w\|"\S+[^,"]"\|`\S+[^,`]`\|[[]\S+[^,"][]])?(,([A-Za-z]\w\|"\S+."\|`\S+[^,`]`\|[[]\S+[^,"][]])?)*$</validator>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	140 </param>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	141 <param name="load_named_columns" type="boolean" truevalue="load_named_columns" falsevalue="" checked="false" label="Only load the columns you have named into database"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	142 <param name="pkey_autoincr" type="text" value="" optional="true" label="Add an auto increment primary key column with this name"
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	143 help="Only creates this additional column when a name is entered. (This can not be the same name as any of the other columns in this table.)">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	144 <validator type="regex" message="Column name">^([A-Za-z]\w*)?$</validator>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	145 </param>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	146 <repeat name="indexes" title="Table Index">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	147 <param name="unique" type="boolean" truevalue="yes" falsevalue="no" checked="False" label="This is a unique index"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	148 <param name="index_columns" type="text" value="" label="Index on Columns">
1 53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	149 <help>Create an index on the column names: e.g. for default column names: c1 or c2,c4 ( use the names you gave for columns)</help>
0 81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	150 <validator type="regex" message="Column name, separated by commes if more than one">^([A-Za-z]\w\|"\S+[^,"]"\|`\S+[^,`]`\|[[]\S+[^,"][]])(,([A-Za-z]\w\|"\S+."\|`\S+[^,`]`\|[[]\S+[^,"][]])?)*$</validator>
1 53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	151 <sanitizer sanitize="False"/>
0 81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	152 </param>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	153 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	154 </section>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	155 </repeat>
4 7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	156 <section name="modify_database" expanded="false" title="Modify the database">
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	157 <repeat name="sql_stmts" title="Database Manipulation SQL Statements" min="0">
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	158 <param name="sqlstmt" type="text" area="true" size="20x80" value="" optional="true" label="SQL Query to modify the database">
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	159 <help>These modify the SQLite database</help>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	160 <sanitizer sanitize="False"/>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	161 </param>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	162 </repeat>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	163 </section>
0 81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	164 <param name="save_db" type="boolean" truevalue="yes" falsevalue="no" checked="false" label="Save the sqlite database in your history"
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	165 help="SQLite to tabular tool can run additional queries on this database"/>
4 7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	166 <expand macro="sql_query_input"/>
1 53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	167 <expand macro="result_results_header_line" />
4 7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	168 <section name="addqueries" expanded="false" title="Additional Queries">
9 4903740da8bc "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit daa9af57fe07ee83a45ddc9f855716f9d14a8e12" iuc parents: 8 diff changeset	169 <repeat name="queries" title="SQL Query" min="0" max="3">
4 7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	170 <expand macro="sql_query_input"/>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	171 <expand macro="result_results_header_line" />
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	172 </repeat>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	173 </section>
0 81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	174 </inputs>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	175 <outputs>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	176 <data format="sqlite" name="sqlitedb" label="sqlite db of ${on_string}">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	177 <filter>save_db</filter>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	178 </data>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	179 <data format="tabular" name="output" label="query results on ${on_string}">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	180 <filter>not save_db or (sqlquery and len(sqlquery.strip()) > 0)</filter>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	181 </data>
4 7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	182 <data format="tabular" name="output1" label="query 1 results on ${on_string}" from_work_dir="results0.tsv">
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	183 <filter>len(addqueries['queries']) > 0</filter>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	184 </data>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	185 <data format="tabular" name="output2" label="query 2 results on ${on_string}" from_work_dir="results1.tsv">
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	186 <filter>len(addqueries['queries']) > 1</filter>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	187 </data>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	188 <data format="tabular" name="output3" label="query 3 results on ${on_string}" from_work_dir="results2.tsv">
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	189 <filter>len(addqueries['queries']) > 2</filter>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	190 </data>
0 81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	191 </outputs>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	192 <tests>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	193 <test>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	194 <repeat name="tables">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	195 <param name="table" ftype="tabular" value="customers.tsv"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	196 <section name="input_opts">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	197 <repeat name="linefilters">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	198 <conditional name="filter">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	199 <param name="filter_type" value="comment"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	200 <param name="comment_char" value="35"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	201 </conditional>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	202 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	203 </section>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	204 <section name="tbl_opts">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	205 <param name="table_name" value="customers"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	206 <param name="col_names" value="CustomerID,FirstName,LastName,Email,DOB,Phone"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	207 </section>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	208 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	209 <repeat name="tables">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	210 <param name="table" ftype="tabular" value="sales.tsv"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	211 <section name="input_opts">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	212 <repeat name="linefilters">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	213 <conditional name="filter">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	214 <param name="filter_type" value="comment"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	215 <param name="comment_char" value="35"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	216 </conditional>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	217 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	218 </section>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	219 <section name="tbl_opts">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	220 <param name="table_name" value="sales"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	221 <param name="col_names" value="CustomerID,Date,SaleAmount"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	222 </section>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	223 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	224 <param name="sqlquery" value="SELECT FirstName,LastName,sum(SaleAmount) as "TotalSales" FROM customers join sales on customers.CustomerID = sales.CustomerID GROUP BY customers.CustomerID ORDER BY TotalSales DESC"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	225 <output name="output" file="sales_results.tsv"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	226 </test>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	227
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	228 <test>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	229 <repeat name="tables">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	230 <param name="table" ftype="tabular" value="customers.tsv"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	231 <section name="input_opts">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	232 <repeat name="linefilters">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	233 <conditional name="filter">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	234 <param name="filter_type" value="comment"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	235 <param name="comment_char" value="35"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	236 </conditional>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	237 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	238 </section>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	239 <section name="tbl_opts">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	240 <param name="col_names" value=",FirstName,LastName,,DOB,"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	241 </section>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	242 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	243 <repeat name="tables">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	244 <param name="table" ftype="tabular" value="sales.tsv"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	245 <section name="input_opts">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	246 <repeat name="linefilters">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	247 <conditional name="filter">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	248 <param name="filter_type" value="skip"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	249 <param name="skip_lines" value="1"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	250 </conditional>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	251 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	252 </section>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	253 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	254 <param name="sqlquery" value="SELECT FirstName,LastName,sum(t2.c3) as "TotalSales" FROM t1 join t2 on t1.c1 = t2.c1 GROUP BY t1.c1 ORDER BY TotalSales DESC;"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	255 <output name="output" file="sales_results.tsv"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	256 </test>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	257
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	258 <test>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	259 <repeat name="tables">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	260 <param name="table" ftype="tabular" value="customers.tsv"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	261 <section name="input_opts">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	262 <repeat name="linefilters">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	263 <conditional name="filter">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	264 <param name="filter_type" value="skip"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	265 <param name="skip_lines" value="1"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	266 </conditional>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	267 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	268 </section>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	269 <section name="tbl_opts">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	270 <param name="col_names" value=",FirstName,LastName,,BirthDate,"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	271 </section>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	272 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	273 <param name="sqlquery" value="select FirstName,LastName,re_sub('^\d{2}(\d{2})-(\d\d)-(\d\d)','\3/\2/\1',BirthDate) as "DOB" from t1 WHERE re_search('[hp]er',c4)"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	274 <output name="output" file="regex_results.tsv"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	275 </test>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	276
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	277 <test>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	278 <repeat name="tables">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	279 <param name="table" ftype="tabular" value="IEDB.tsv"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	280 <section name="input_opts">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	281 <repeat name="linefilters">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	282 <conditional name="filter">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	283 <param name="filter_type" value="comment"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	284 <param name="comment_char" value="35"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	285 </conditional>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	286 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	287 </section>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	288 <section name="tbl_opts">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	289 <param name="table_name" value="iedb"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	290 <param name="col_names" value="ID,allele,seq_num,start,end,length,peptide,method,percentile_rank,ann_ic50,ann_rank,smm_ic50,smm_rank,comblib_sidney2008_score,comblib_sidney2008_rank,netmhcpan_ic50,netmhcpan_rank"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	291 </section>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	292 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	293 <repeat name="tables">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	294 <param name="table" ftype="tabular" value="netMHC_summary.tsv"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	295 <section name="input_opts">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	296 <repeat name="linefilters">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	297 <conditional name="filter">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	298 <param name="filter_type" value="skip"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	299 <param name="skip_lines" value="1"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	300 </conditional>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	301 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	302 </section>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	303 <section name="tbl_opts">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	304 <param name="table_name" value="mhc_summary"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	305 <param name="col_names" value="pos,peptide,logscore,affinity,Bind_Level,Protein,Allele"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	306 </section>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	307 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	308 <param name="sqlquery" value="select iedb.ID,iedb.peptide,iedb.start,iedb.end,iedb.percentile_rank,mhc_summary.logscore,mhc_summary.affinity,mhc_summary.Bind_Level from iedb left outer join mhc_summary on iedb.peptide = mhc_summary.peptide order by affinity,Bind_Level,percentile_rank"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	309 <output name="output" file="query_results.tsv"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	310 </test>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	311
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	312 <test>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	313 <section name="add_to_database">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	314 <param name="withdb" ftype="sqlite" value="testdb.sqlite"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	315 </section>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	316 <repeat name="tables">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	317 <param name="table" ftype="tabular" value="pets.tsv"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	318 <section name="input_opts">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	319 <repeat name="linefilters">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	320 <conditional name="filter">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	321 <param name="filter_type" value="regex"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	322 <param name="regex_pattern" value="^\d+"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	323 <param name="regex_action" value="include_find"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	324 </conditional>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	325 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	326 <repeat name="linefilters">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	327 <conditional name="filter">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	328 <param name="filter_type" value="comment"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	329 <param name="comment_char" value="35"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	330 </conditional>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	331 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	332 <repeat name="linefilters">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	333 <conditional name="filter">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	334 <param name="filter_type" value="append_line_num"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	335 </conditional>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	336 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	337 <repeat name="linefilters">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	338 <conditional name="filter">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	339 <param name="filter_type" value="select_columns"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	340 <param name="columns" value="7,2,3,4,1"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	341 </conditional>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	342 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	343 <repeat name="linefilters">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	344 <conditional name="filter">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	345 <param name="filter_type" value="replace"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	346 <param name="column" value="c4"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	347 <param name="regex_pattern" value="(\d+)/(\d+)/(\d+)"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	348 <param name="regex_replace" value="19\3-\2-\1"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	349 </conditional>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	350 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	351 </section>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	352 <section name="tbl_opts">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	353 <param name="table_name" value="people"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	354 <param name="col_names" value="id,first,last,dob,pets"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	355 </section>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	356 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	357 <param name="sqlquery" value="SELECT people.id,first,last,pets,quote FROM people JOIN contacts ON people.first = contacts.first_name"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	358 <output name="output" file="add_to_db_results.tsv"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	359 </test>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	360
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	361 <test>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	362 <repeat name="tables">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	363 <param name="table" ftype="tabular" value="pets.tsv"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	364 <section name="input_opts">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	365 <repeat name="linefilters">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	366 <conditional name="filter">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	367 <param name="filter_type" value="regex"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	368 <param name="regex_pattern" value="^\d+"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	369 <param name="regex_action" value="include_find"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	370 </conditional>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	371 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	372 <repeat name="linefilters">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	373 <conditional name="filter">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	374 <param name="filter_type" value="comment"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	375 <param name="comment_char" value="35"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	376 </conditional>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	377 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	378 <repeat name="linefilters">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	379 <conditional name="filter">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	380 <param name="filter_type" value="append_line_num"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	381 </conditional>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	382 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	383 <repeat name="linefilters">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	384 <conditional name="filter">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	385 <param name="filter_type" value="select_columns"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	386 <param name="columns" value="7,2,3,4,1"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	387 </conditional>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	388 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	389 <repeat name="linefilters">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	390 <conditional name="filter">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	391 <param name="filter_type" value="replace"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	392 <param name="column" value="c4"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	393 <param name="regex_pattern" value="(\d+)/(\d+)/(\d+)"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	394 <param name="regex_replace" value="19\3-\2-\1"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	395 </conditional>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	396 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	397 </section>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	398 <section name="tbl_opts">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	399 <param name="table_name" value="people"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	400 <param name="col_names" value="id,first,last,dob,pets"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	401 </section>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	402 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	403 <repeat name="tables">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	404 <param name="table" ftype="tabular" value="pets.tsv"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	405 <section name="input_opts">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	406 <repeat name="linefilters">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	407 <conditional name="filter">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	408 <param name="filter_type" value="regex"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	409 <param name="regex_pattern" value="^\d+"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	410 <param name="regex_action" value="include_find"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	411 </conditional>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	412 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	413 <repeat name="linefilters">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	414 <conditional name="filter">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	415 <param name="filter_type" value="append_line_num"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	416 </conditional>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	417 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	418 <repeat name="linefilters">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	419 <conditional name="filter">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	420 <param name="filter_type" value="select_columns"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	421 <param name="columns" value="c7,c5,c6"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	422 </conditional>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	423 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	424 <repeat name="linefilters">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	425 <conditional name="filter">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	426 <param name="filter_type" value="normalize"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	427 <param name="columns" value="c2,c3"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	428 <param name="separator" value=","/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	429 </conditional>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	430 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	431 </section>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	432 <section name="tbl_opts">
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	433 <param name="table_name" value="pet"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	434 <param name="col_names" value="id,name,animal"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	435 </section>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	436 </repeat>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	437 <param name="sqlquery" value="SELECT people.id,first,last,dob,name,animal,pets FROM people JOIN pet ON people.id = pet.id WHERE animal = 'cat'"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	438 <output name="output" file="pet_normalized_query_results.tsv"/>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	439 </test>
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	440
1 53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	441 <test>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	442 <repeat name="tables">
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	443 <param name="table" ftype="tabular" value="psm_report.tsv"/>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	444 <section name="input_opts">
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	445 <repeat name="linefilters">
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	446 <conditional name="filter">
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	447 <param name="filter_type" value="select_columns"/>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	448 <param name="columns" value="1,3,2,6,14,19"/>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	449 </conditional>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	450 </repeat>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	451 </section>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	452 <section name="tbl_opts">
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	453 <param name="table_name" value="PSMs"/>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	454 <param name="column_names_from_first_line" value="True"/>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	455 <param name="col_names" value="Scan"/>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	456 </section>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	457 </repeat>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	458 <param name="sqlquery" value="SELECT * from PSMs"/>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	459 <conditional name="query_result">
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	460 <param name="header" value="yes"/>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	461 <param name="header_prefix" value=""/>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	462 </conditional>
8 5c3d86bc259c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 1647065a8e6e8d8c98cd0d2194b695fb9425f541" iuc parents: 6 diff changeset	463 <output name="output" file="psm_report_out1.tsv" compare="re_match"/>
1 53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	464 </test>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	465
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	466 <test>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	467 <repeat name="tables">
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	468 <param name="table" ftype="tabular" value="psm_report.tsv"/>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	469 <section name="input_opts">
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	470 <repeat name="linefilters">
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	471 <conditional name="filter">
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	472 <param name="filter_type" value="select_columns"/>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	473 <param name="columns" value="1,3,2,6,14,19"/>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	474 </conditional>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	475 </repeat>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	476 </section>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	477 <section name="tbl_opts">
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	478 <param name="table_name" value="PSMs"/>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	479 <param name="column_names_from_first_line" value="True"/>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	480 <param name="col_names" value="Scan"/>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	481 </section>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	482 </repeat>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	483 <param name="sqlquery" value="SELECT Scan,"m/z", "Precursor m/z Error [ppm]", Sequence, "Protein(s)" FROM PSMs WHERE NOT re_search(', ',"Protein(s)")"/>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	484 <conditional name="query_result">
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	485 <param name="header" value="yes"/>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	486 <param name="header_prefix" value=""/>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	487 </conditional>
8 5c3d86bc259c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 1647065a8e6e8d8c98cd0d2194b695fb9425f541" iuc parents: 6 diff changeset	488 <output name="output" file="psm_report_out2.tsv" compare="re_match"/>
1 53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	489 </test>
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	490
4 7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	491 <test>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	492 <repeat name="tables">
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	493 <param name="table" ftype="tabular" value="psm_report.tsv"/>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	494 <section name="input_opts">
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	495 <repeat name="linefilters">
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	496 <conditional name="filter">
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	497 <param name="filter_type" value="select_columns"/>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	498 <param name="columns" value="1,3,2,6,14,19,23"/>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	499 </conditional>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	500 </repeat>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	501 </section>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	502 <section name="tbl_opts">
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	503 <param name="table_name" value="PSMs"/>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	504 <param name="column_names_from_first_line" value="True"/>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	505 <param name="col_names" value="scan,,,,,,confidence"/>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	506 </section>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	507 </repeat>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	508 <section name="modify_database">
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	509 <repeat name="sql_stmts">
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	510 <param name="sqlstmt" value="UPDATE psms SET confidence = 99.999 WHERE confidence = 100.0"/>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	511 </repeat>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	512 </section>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	513 <param name="sqlquery" value="SELECT scan,"m/z", "Precursor m/z Error [ppm]", Sequence, "Protein(s)", confidence FROM PSMs WHERE NOT re_search(', ',"Protein(s)")"/>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	514 <conditional name="query_result">
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	515 <param name="header" value="yes"/>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	516 <param name="header_prefix" value="#"/>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	517 </conditional>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	518 <section name="addqueries">
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	519 <repeat name="queries">
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	520 <param name="sqlquery" value="SELECT * FROM psms WHERE confidence > 97.0"/>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	521 <conditional name="query_result">
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	522 <param name="header" value="yes"/>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	523 <param name="header_prefix" value=""/>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	524 </conditional>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	525 </repeat>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	526 </section>
8 5c3d86bc259c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 1647065a8e6e8d8c98cd0d2194b695fb9425f541" iuc parents: 6 diff changeset	527 <output name="output" file="psm_dbmod_output.tsv" compare="re_match"/>
5c3d86bc259c "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 1647065a8e6e8d8c98cd0d2194b695fb9425f541" iuc parents: 6 diff changeset	528 <output name="output1" file="psm_dbmod_output1.tsv" compare="re_match"/>
4 7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	529 </test>
7be49fd649f7 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 6a362345c31764c28bb6328da1f0d81ef8f35d40 iuc parents: 1 diff changeset	530
10 f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	531 <test>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	532 <repeat name="tables">
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	533 <param name="table" ftype="tabular" value="netMHC_summary.tsv"/>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	534 <section name="input_opts">
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	535 <repeat name="linefilters">
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	536 <conditional name="filter">
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	537 <param name="filter_type" value="regex"/>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	538 <param name="regex_pattern" value="peptide"/>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	539 <param name="regex_action" value="include_find"/>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	540 </conditional>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	541 </repeat>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	542 </section>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	543 <section name="tbl_opts">
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	544 <param name="table_name" value="epitope"/>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	545 <param name="column_names_from_first_line" value="True"/>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	546 </section>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	547 </repeat>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	548 <param name="sqlquery" value="SELECT * FROM epitope"/>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	549 <conditional name="query_result">
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	550 <param name="header" value="yes"/>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	551 <param name="header_prefix" value=""/>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	552 </conditional>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	553 <output name="output" file="netMHC_summary_out1.tsv" ftype="tabular"/>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	554 </test>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	555
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	556 <test>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	557 <repeat name="tables">
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	558 <param name="table" ftype="tabular" value="netMHC_summary.tsv"/>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	559 <section name="input_opts">
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	560 <repeat name="linefilters">
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	561 <conditional name="filter">
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	562 <param name="filter_type" value="regex"/>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	563 <param name="regex_pattern" value="NOT TO BE FOUND"/>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	564 <param name="regex_action" value="include_find"/>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	565 </conditional>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	566 </repeat>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	567 </section>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	568 <section name="tbl_opts">
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	569 <param name="table_name" value="epitope"/>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	570 <param name="column_names_from_first_line" value="False"/>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	571 <param name="col_names" value="pos,peptide,logscore,,,,Allele"/>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	572 </section>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	573 </repeat>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	574 <param name="sqlquery" value="SELECT pos,peptide,logscore,Allele FROM epitope"/>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	575 <conditional name="query_result">
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	576 <param name="header" value="yes"/>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	577 <param name="header_prefix" value=""/>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	578 </conditional>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	579 <output name="output" file="netMHC_summary_out2.tsv" ftype="tabular"/>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	580 </test>
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	581
12 504f24a8eb76 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11" iuc parents: 11 diff changeset	582 <test> <!-- math functions -->
504f24a8eb76 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11" iuc parents: 11 diff changeset	583 <repeat name="tables">
504f24a8eb76 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11" iuc parents: 11 diff changeset	584 <param name="table" ftype="tabular" value="math_input.tsv"/>
504f24a8eb76 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11" iuc parents: 11 diff changeset	585 </repeat>
504f24a8eb76 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11" iuc parents: 11 diff changeset	586 <param name="sqlquery" value="SELECT c1, c2, trunc(c2), floor(c2), ceil(c2), abs(c1), fabs(c2), mod(c1,2), fmod(c2, 1.5), sqrt(c1), sqrt(c2), degrees(c1), radians(c1), log(c1), log10(c1), pow(c1,2), exp(c2), exp(c1), cos(c1), sin(c1), tan(c1), cosh(c1), sinh(c1), tanh(c1), acos(c1), asin(c1),acosh(c1), asinh(c1) FROM t1"/>
504f24a8eb76 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11" iuc parents: 11 diff changeset	587 <output name="output">
504f24a8eb76 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11" iuc parents: 11 diff changeset	588 <assert_contents>
504f24a8eb76 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11" iuc parents: 11 diff changeset	589 <has_text_matching expression="-2\t-2.222\t-2\t-3\t-2\t2\t2.222\t0\t-0.722\t\t\t-114.59155\d\t-0.03490\d\t\t\t4.0\t0.10839\d\t0.13533\d\t-0.41614\d\t-0.90929\d\t2.18503\d\t3.76219\d\t-3.62686\d\t-0.96402\d\t\t\t\t-1.44363\d*" />
504f24a8eb76 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11" iuc parents: 11 diff changeset	590 <has_text_matching expression="-1\t-1.999\t-1\t-2\t-1\t1\t1.999\t1\t-0.49900\d\t\t\t-57.29577\d\t-0.01745\d\t\t\t1.0\t0.13547\d\t0.36787\d\t0.54030\d\t-0.84147\d\t-1.55740\d\t1.54308\d\t-1.17520\d\t-0.76159\d\t3.14159\d\t-1.57079\d\t\t-0.88137\d" />
504f24a8eb76 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11" iuc parents: 11 diff changeset	591 <has_text_matching expression="0\t0.0\t0\t0\t0\t0\t0.0\t0\t0.0\t0.0\t0.0\t0.0\t0.0\t\t\t0.0\t1.0\t1.0\t1.0\t0.0\t0.0\t1.0\t0.0\t0.0\t1.57079\d*\t0.0\t\t0.0" />
504f24a8eb76 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11" iuc parents: 11 diff changeset	592 <has_text_matching expression="1\t1.0\t1\t1\t1\t1\t1.0\t1\t1.0\t1.0\t1.0\t57.29577\d\t0.01745\d\t0.0\t0.0\t1.0\t2.71828\d\t2.71828\d\t0.54030\d\t0.84147\d\t1.55740\d\t1.54308\d\t1.17520\d\t0.76159\d\t0.0\t1.57079\d\t0.0\t0.88137\d" />
504f24a8eb76 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11" iuc parents: 11 diff changeset	593 <has_text_matching expression="2\t2.22\t2\t2\t3\t2\t2.22\t0\t0.72000\d\t1.41421\d\t1.48996\d\t114.59155\d\t0.03490\d\t0.69314\d\t0.30102\d\t4.0\t9.20733\d\t7.38905\d\t-0.41614\d\t0.90929\d\t-2.18503\d\t3.76219\d\t3.62686\d\t0.96402\d\t\t\t1.31695\d\t1.44363\d*" />
504f24a8eb76 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11" iuc parents: 11 diff changeset	594 <has_text_matching expression="3\t3.33333\d\t3\t3\t4\t3\t3.33333\d\t1\t0.33333\d\t1.73205\d\t1.82574\d\t171.88733\d\t0.05235\d\t1.09861\d\t0.47712\d\t9.0\t28.03153\d\t20.08553\d\t-0.98999\d\t0.14112\d\t-0.14254\d\t10.06766\d\t10.01787\d\t0.99505\d\t\t\t1.76274\d\t1.81844\d*" />
504f24a8eb76 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11" iuc parents: 11 diff changeset	595 <has_text_matching expression="4\t4.00444\d\t4\t4\t5\t4\t4.00444\d\t0\t1.00443\d\t2.0\t2.00110\d\t229.18311\d\t0.06981\d\t1.38629\d\t0.60205\d\t16.0\t54.84110\d\t54.59815\d\t-0.65364\d\t-0.75680\d\t1.15782\d\t27.30823\d\t27.28991\d\t0.99932\d\t\t\t2.06343\d\t2.09471\d" />
504f24a8eb76 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11" iuc parents: 11 diff changeset	596 <has_text_matching expression="5\t5.555\t5\t5\t6\t5\t5.555\t1\t1.05499\d\t2.23606\d\t2.35690\d\t286.47889\d\t0.08726\d\t1.60943\d\t0.69897\d\t25.0\t258.52696\d\t148.41315\d\t0.28366\d\t-0.95892\d\t-3.38051\d\t74.20994\d\t74.20321\d\t0.99990\d\t\t\t2.29243\d\t2.31243\d*" />
504f24a8eb76 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11" iuc parents: 11 diff changeset	597 </assert_contents>
504f24a8eb76 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11" iuc parents: 11 diff changeset	598 </output>
504f24a8eb76 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11" iuc parents: 11 diff changeset	599 </test>
504f24a8eb76 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11" iuc parents: 11 diff changeset	600
0 81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	601 </tests>
12 504f24a8eb76 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 4fd70e184fca17ad430c30eb286127c4a198ef11" iuc parents: 11 diff changeset	602
0 81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	603 <help><![CDATA[
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	604 =============
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	605 Query Tabular
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	606 =============
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	607
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	608 Inputs
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	609
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	610 Loads tabular datasets into a SQLite_ data base.
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	611
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	612 An existing SQLite_ data base can be used as input, and any selected tabular datasets will be added as new tables in that data base.
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	613
10 f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	614 NOTE: If there are no data rows in an input tabular dataset, query_tabular will fail unless:
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	615
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	616 - There is a row header line in the dataset and Use first line as column names is selected
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	617 - Specify Column Names is used to provide column names
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	618
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	619 in which case an empty table will be created with those columns
f777a82b7a15 "planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 67db58361546009a77b2cbd140967fbc634d425b" iuc parents: 9 diff changeset	620
0 81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	621
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	622 @LINEFILTERS_HELP@
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	623
1 53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	624 Table Options
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	625
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	626 Specify Name for Table:
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	627
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	628 - By default tables will be named: t1, t2, t3, etc.
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	629
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	630 - Specify Name for Table
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	631 You can provide your own name for a database table, the name should begin with a letter and only contain letters, digits, or underscores.
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	632 The name should not be a SQLite key word: https://sqlite.org/lang_keywords.html
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	633
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	634
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	635 There are several ways to name columns in a table:
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	636
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	637 - By default table columns will be named: c1, c2, c3, etc.
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	638
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	639 - If Use first line as column names is selected, the first line is interpreted as column names, and not loaded into the table as a data row.
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	640 Any missing column name will be assigned cn where n is the ordinal position of the column,
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	641 e.g. a blank header for the second column would be named: c2.
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	642 The column names will be quoted is they are not valid identifiers,
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	643 e.g. if they are SQLite keywords, or start with a non letter character, or contain a character other than a letter, digit, or underscore.
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	644 The precedent for quoting is to enclose the identifier in double quotes,
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	645 else if it contains a double quote enclose in square brackets,
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	646 else if it contains a square bracket enclose in grave accents.
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	647 NOTE: that this is the first line after line filtering has been applied.
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	648 If a line filter prepend a line number column had been used, the name of the first column would be "1".
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	649 You could rename that column using Specify Column Names
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	650
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	651 - Specify Column Names (comma-separated list)
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	652 This will override any previously assigned column names.
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	653 You can also choose to only load those columns for which you provided a name,
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	654 but that is better accomplished with the line filter: select columns.
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	655
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	656
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	657 Table Index
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	658
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	659 Queries on larger tables can be much faster if indexes are specified.
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	660 In general, specifiy an index for table columns used in joins with other tables,
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	661 or on columns used in SQL query WHERE clauses or in GROUP BY clauses.
53c9f76c0788 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 81f69ad5f39223059c40501e55ac777d3feca845 iuc parents: 0 diff changeset	662
0 81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	663
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	664 Outputs
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	665
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	666 The results of a SQL query are output to the history as a tabular file.
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	667
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	668 The SQLite_ data base can also be saved and output as a dataset in the history.
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	669
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	670 (The SQLite to tabular tool can run additional queries on this database.)
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	671
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	672
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	673 @QUERY_HELP@
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	674
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	675 @LINEFILTERS_HELP_EXAMPLE@
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	676
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	677
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	678 Table name: pets
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	679
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	680 Table columns: Pets,FirstName,LastName,Birthdate,PetNames,PetType,line_num,entry_num,row_num
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	681
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	682 Query: SELECT * FROM pets
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	683
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	684 Result:
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	685
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	686 ====== ========== ======== ========== ========= ======== ========= ========== ========
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	687 #Pets FirstName LastName BirthDate PetNames PetType line_num entry_num row_num
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	688 ====== ========== ======== ========== ========= ======== ========= ========== ========
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	689 2 Paula Brown 1978-05-24 Rex dog 3 1 1
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	690 2 Paula Brown 1978-05-24 Fluff cat 3 1 2
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	691 1 Steven Jones 1974-04-04 Allie cat 4 2 3
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	692 0 Jane Doe 1978-05-24 5 3 4
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	693 1 James Smith 1980-10-20 Spot 6 4 5
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	694 ====== ========== ======== ========== ========= ======== ========= ========== ========
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	695
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	696
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	697 Normalizing by Line Filtering into 2 Tables
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	698
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	699 *Relational database opertions work with single-valued column entries.
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	700 To apply relational operations to tabular files that contain fields with lists of values,
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	701 we need to "normalize" those fields, duplicating lines for each item in the list.
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	702 In this example we create 2 tables, one for single-valued fields and a second with list-valued fields normalized.
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	703 Becauce we add a line number first for each table, we can join the 2 tables on the line number column.*
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	704 https://en.wikipedia.org/wiki/First_normal_form
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	705
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	706 People Table
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	707
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	708 ::
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	709
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	710 Filter 1 - by regex expression matching [include]: '^\d+' (include lines that start with a number)
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	711 Filter 2 - append a line number column:
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	712 Filter 3 - regex replace value in column[4]: '(\d+)/(\d+)/(\d+)' '19\3-\2-\1' (convert dates to sqlite format)
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	713 Filter 4 - select columns 7,2,3,4,1
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	714
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	715 Table: People
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	716 Columns: id,FirstName,LastName,DOB,Pets
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	717
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	718 == ========= ======== ========== ====
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	719 id FirstName LastName DOB Pets
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	720 == ========= ======== ========== ====
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	721 1 Paula Brown 1978-05-24 2
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	722 2 Steven Jones 1974-04-04 1
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	723 3 Jane Doe 1978-05-24 0
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	724 4 James Smith 1980-10-20 1
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	725 == ========= ======== ========== ====
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	726
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	727
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	728 Pet Table
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	729
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	730 ::
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	731
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	732 Filter 1 - by regex expression matching [include]: '^\d+' (include lines that start with a number)
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	733 Filter 2 - append a line number column:
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	734 Filter 3 - by regex expression matching [exclude]: '^0\t' (exclude lines with no pets)
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	735 Filter 4 - normalize list columns[5,6]:
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	736 Filter 5 - select columns 7,5,6
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	737
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	738 Table: Pet
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	739 Columns: id,PetName,PetType
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	740
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	741 == ======== ========
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	742 id PetName PetType
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	743 == ======== ========
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	744 1 Rex dog
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	745 1 Fluff cat
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	746 2 Allie cat
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	747 4 Spot
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	748 == ======== ========
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	749
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	750
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	751 Query: SELECT FirstName,LastName,PetName FROM People JOIN Pet ON People.id = Pet.id WHERE PetType = 'cat';
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	752
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	753 Result:
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	754
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	755 ========= ======== ========
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	756 FirstName LastName PetName
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	757 ========= ======== ========
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	758 Paula Brown Fluff
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	759 Steven Jones Allie
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	760 ========= ======== ========
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	761
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	762
81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	763 ]]></help>
6 5b557716b4b3 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 43d0f694b024cf9b1f0e26d803d3f19f38c95ee9 iuc parents: 4 diff changeset	764 <expand macro="citations" />
0 81ad914a0b08 planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/query_tabular commit 74915fc9cee746bbce1c4b507e13231259de177d iuc parents: diff changeset	765 </tool>

Mercurial > repos > iuc > query_tabular

annotate query_tabular.xml @ 12:504f24a8eb76 draft