Mercurial > repos > bgruening > split_file_on_column

annotate split_file_on_column.xml @ 4:84a32a8409de draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
author bgruening
date Mon, 04 Jul 2022 12:26:15 +0000
parents 61e58789650e
children 46075dd1d815
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
4
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
1 <tool id="tp_split_on_column" name="Split by group" version="0.5">
0
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
2 <requirements>
3
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
3 <requirement type="package" version="5.0.1">gawk</requirement>
0
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
4 </requirements>
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
5 <command>
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
6 <![CDATA[
3
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
7 mkdir tmp_out &&
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
8 #if $include_header
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
9 awk -F '\t' 'NR==1{hdr=$0;next}f!="tmp_out/"\$$column".$infile.ext"{if(f) close(f); f="tmp_out/"\$$column".$infile.ext";print hdr>f} {print >> f}' $infile
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
10 #else
2
bddc7c1070d2 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 62597aa4ecda3de4ebdf8794d83a494e32148b11
bgruening
parents: 1
diff changeset
11 awk -F'\t' '{print > "tmp_out/"\$$column".$infile.ext" }' '$infile'
3
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
12 #end if
0
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
13 ]]>
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
14 </command>
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
15 <inputs>
4
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
16 <param format="tabular" name="infile" type="data" label="File to split" />
0
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
17 <param name="column" label="on column" type="data_column" data_ref="infile" accept_default="true" />
3
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
18
4
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
19 <param name="include_header" type="boolean" label="Include header in splits?"
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
20 help="Include the first line (the assumed header line) to all split files." />
0
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
21 </inputs>
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
22 <outputs>
4
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
23 <collection name="split_output" type="list" label="Split by group collection">
1
b1914e537f3e planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit af7f8fd0977384f9b4225d414623bf5d6ce23a7e
bgruening
parents: 0
diff changeset
24 <discover_datasets pattern="__name_and_ext__" directory="tmp_out" />
0
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
25 </collection>
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
26 </outputs>
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
27 <tests>
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
28 <test>
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
29 <param name="infile" value="5cols.tabular" ftype="tabular"/>
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
30 <param name="column" value="5" />
3
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
31 <param name="include_header" value="false"/>
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
32 <output_collection name="split_output" type="list">
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
33 <element name="1">
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
34 <assert_contents>
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
35 <has_text_matching expression="chr7\t56632\t56652\tcluster\t1" />
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
36 </assert_contents>
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
37 </element>
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
38 <element name="2">
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
39 <assert_contents>
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
40 <has_text_matching expression="chr7\t56761\t56781\tcluster\t2" />
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
41 </assert_contents>
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
42 </element>
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
43 </output_collection>
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
44 </test>
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
45 <test>
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
46 <param name="infile" value="5cols-with-header.tabular" ftype="tabular" />
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
47 <param name="column" value="5" />
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
48 <param name="include_header" value="true"/>
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
49 <output_collection name="split_output" type="list">
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
50 <element name="1">
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
51 <assert_contents>
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
52 <has_line_matching expression="Column1\tColumn2\tColumn3\tColumn4\tColumn5" />
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
53 <has_n_lines n="3" />
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
54 <has_text_matching expression="chr7\t56632\t56652\tcluster\t1" />
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
55 </assert_contents>
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
56 </element>
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
57 <element name="2">
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
58 <assert_contents>
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
59 <has_line_matching expression="Column1\tColumn2\tColumn3\tColumn4\tColumn5" />
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
60 <has_n_lines n="4" />
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
61 <has_text_matching expression="chr7\t56761\t56781\tcluster\t2" />
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
62 </assert_contents>
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
63 </element>
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
64 </output_collection>
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
65 </test>
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
66 <test>
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
67 <param name="infile" value="5cols-with-header.tabular" ftype="tabular" />
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
68 <param name="column" value="5" />
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
69 <param name="include_header" value="false"/>
0
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
70 <output_collection name="split_output" type="list">
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
71 <element name="1">
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
72 <assert_contents>
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
73 <has_text_matching expression="chr7\t56632\t56652\tcluster\t1" />
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
74 </assert_contents>
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
75 </element>
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
76 <element name="2">
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
77 <assert_contents>
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
78 <has_text_matching expression="chr7\t56761\t56781\tcluster\t2" />
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
79 </assert_contents>
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
80 </element>
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
81 </output_collection>
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
82 </test>
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
83 </tests>
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
84 <help>
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
85 <![CDATA[
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
86
4
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
87 ========
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
88 Synopsis
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
89 ========
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
90
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
91 Given a single input dataset this tool splits the file on unique values from a specified column.
0
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
92
4
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
93 ===========
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
94 Description
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
95 ===========
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
96
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
97 This tool splits a file into a collection based on unique values of a speific column.
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
98 It performs a grouping operation with every group saved as a separate collection element.
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
99 You have the option to include the header (first line) to all splits.
3
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
100 If you have a header and don't want keep it, please remove it before you use this tool.
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
101 For example with the "Remove beginning of a file" tool.
0
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
102
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
103 -----
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
104
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
105 **Example**
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
106
4
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
107 Splitting this file on column 1::
0
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
108
4
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
109 chr1 10 20
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
110 chr1 30 40
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
111 chr2 40 70
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
112 chr4 60 80
0
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
113
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
114
4
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
115 will produce a collectiion with 4 elements::
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
116
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
117 chr1 10 20
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
118 chr1 30 40
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
119
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
120 chr2 40 70
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
121
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
122 chr4 60 80
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
123
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
124 ------
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
125
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
126 .. image:: $PATH_TO_IMAGES/split_by_group.svg
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
127 :width: 800
84a32a8409de planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit df81dd26ed1cf67a0d95b9614738b1d59667773f
bgruening
parents: 3
diff changeset
128 :alt: Split by group
0
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
129
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
130 ]]>
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
131 </help>
2
bddc7c1070d2 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 62597aa4ecda3de4ebdf8794d83a494e32148b11
bgruening
parents: 1
diff changeset
132 <citations>
3
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
133 <citation type="bibtex">
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
134 @misc{githubsplit_file_on_column,
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
135 author = {Gruening, Bjoern},
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
136 year = {2015},
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
137 title = {split_file_on_column},
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
138 publisher = {GitHub},
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
139 journal = {GitHub repository},
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
140 url = {https://github.com/bgruening/galaxytools},
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
141 }
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
142 </citation>
2
bddc7c1070d2 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 62597aa4ecda3de4ebdf8794d83a494e32148b11
bgruening
parents: 1
diff changeset
143 </citations>
0
f30aca50efbb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 36d05738e78c68091b45779624734e6a47829856-dirty
bgruening
parents:
diff changeset
144 </tool>
3
61e58789650e "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/split_file_on_column commit 4d0bfcf37bfbedafc7ff0672dfe452766ca8a606"
bgruening
parents: 2
diff changeset
145