text_processing: awk.xml annotate

annotate awk.xml @ 29:4f7cade041cb draft default tip

planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31

author	bgruening
date	Wed, 04 Jun 2025 15:11:51 +0000
parents	08cdbfffce67
children

rev	line source
26 f22a309187a3 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit c2b1677d1c94433f777c2dc28ac8eec0a99cc6a7 bgruening parents: 24 diff changeset	1 <tool id="tp_awk_tool" name="Text reformatting" version="@TOOL_VERSION@+galaxy@VERSION_SUFFIX@" profile="@PROFILE@">
2 fc862d5bccaf Uploaded bgruening parents: 1 diff changeset	2 <description>with awk</description>
4 56e80527c482 Uploaded bgruening parents: 3 diff changeset	3 <macros>
56e80527c482 Uploaded bgruening parents: 3 diff changeset	4 <import>macros.xml</import>
56e80527c482 Uploaded bgruening parents: 3 diff changeset	5 </macros>
26 f22a309187a3 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit c2b1677d1c94433f777c2dc28ac8eec0a99cc6a7 bgruening parents: 24 diff changeset	6 <expand macro="creator"/>
13 3c685c4106b3 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit b9d202134c3c6d0e5c398c3ae75e410067fcfc52 bgruening parents: 12 diff changeset	7 <requirements>
27 08cdbfffce67 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 2dc2df988bd2dde9f8d7f629b594186dbd4fdc2b bgruening parents: 26 diff changeset	8 <requirement type="package" version="5.3.1">gawk</requirement>
13 3c685c4106b3 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit b9d202134c3c6d0e5c398c3ae75e410067fcfc52 bgruening parents: 12 diff changeset	9 </requirements>
4 56e80527c482 Uploaded bgruening parents: 3 diff changeset	10 <version_command>awk --version \| head -n 1</version_command>
0 ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	11 <command>
4 56e80527c482 Uploaded bgruening parents: 3 diff changeset	12 <![CDATA[
20 1aa30b2c73c9 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4f79443517baf378fbfe1f81be361d97f2938601 bgruening parents: 18 diff changeset	13 env -i
24 5fef6d08de83 "planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 5f5d5802a961a77ceb092cbdef90d93e29717029-dirty" bgruening parents: 22 diff changeset	14 \$(which awk)
4 56e80527c482 Uploaded bgruening parents: 3 diff changeset	15 --sandbox
6 8928e6d1e7ba Uploaded bgruening parents: 4 diff changeset	16 -v FS=' '
8928e6d1e7ba Uploaded bgruening parents: 4 diff changeset	17 -v OFS=' '
29 4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	18 #for $i, $r in enumerate($variables, start=1)
4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	19 -v VAR$i='$r.value'
4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	20 #end for
4 56e80527c482 Uploaded bgruening parents: 3 diff changeset	21 --re-interval
26 f22a309187a3 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit c2b1677d1c94433f777c2dc28ac8eec0a99cc6a7 bgruening parents: 24 diff changeset	22 -f '$awk_script'
f22a309187a3 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit c2b1677d1c94433f777c2dc28ac8eec0a99cc6a7 bgruening parents: 24 diff changeset	23 '$infile'
f22a309187a3 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit c2b1677d1c94433f777c2dc28ac8eec0a99cc6a7 bgruening parents: 24 diff changeset	24 > '$outfile'
4 56e80527c482 Uploaded bgruening parents: 3 diff changeset	25 ]]>
0 ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	26 </command>
13 3c685c4106b3 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit b9d202134c3c6d0e5c398c3ae75e410067fcfc52 bgruening parents: 12 diff changeset	27 <configfiles>
3c685c4106b3 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit b9d202134c3c6d0e5c398c3ae75e410067fcfc52 bgruening parents: 12 diff changeset	28 <configfile name="awk_script">$code</configfile>
3c685c4106b3 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit b9d202134c3c6d0e5c398c3ae75e410067fcfc52 bgruening parents: 12 diff changeset	29 </configfiles>
0 ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	30 <inputs>
6 8928e6d1e7ba Uploaded bgruening parents: 4 diff changeset	31 <param name="infile" format="txt" type="data" label="File to process" />
8928e6d1e7ba Uploaded bgruening parents: 4 diff changeset	32 <param name="code" type="text" area="true" size="5x35" label="AWK Program" help="">
0 ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	33 <sanitizer>
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	34 <valid initial="string.printable">
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	35 <remove value="'"/>
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	36 </valid>
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	37 </sanitizer>
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	38 </param>
29 4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	39 <repeat name="variables" min="0" default="0" title="Variables">
4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	40 <param name="value" type="text" label="Value">
4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	41 <validator type="regex">[a-zA-Z0-9 .]+</validator>
4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	42 </param>
4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	43 </repeat>
4 56e80527c482 Uploaded bgruening parents: 3 diff changeset	44 </inputs>
56e80527c482 Uploaded bgruening parents: 3 diff changeset	45 <outputs>
6 8928e6d1e7ba Uploaded bgruening parents: 4 diff changeset	46 <data name="outfile" format_source="infile" metadata_source="infile"/>
4 56e80527c482 Uploaded bgruening parents: 3 diff changeset	47 </outputs>
56e80527c482 Uploaded bgruening parents: 3 diff changeset	48 <tests>
6 8928e6d1e7ba Uploaded bgruening parents: 4 diff changeset	49 <test>
29 4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	50 <param name="infile" value="awk1.txt"/>
6 8928e6d1e7ba Uploaded bgruening parents: 4 diff changeset	51 <!-- commas are not allowed in a value field. Values with comma will be splitted -->
8928e6d1e7ba Uploaded bgruening parents: 4 diff changeset	52 <param name="code" value='$2>0.5 { print $2*9"\t"$1 }' />
8928e6d1e7ba Uploaded bgruening parents: 4 diff changeset	53 <output name="outfile" file="awk_results1.txt" />
8928e6d1e7ba Uploaded bgruening parents: 4 diff changeset	54 </test>
29 4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	55 <test>
4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	56 <param name="infile" value="awk1.txt"/>
4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	57 <!-- commas are not allowed in a value field. Values with comma will be splitted -->
4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	58 <param name="code" value='$2>VAR2 { print VAR1"\t"$2*9"\t"$1 }' />
4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	59 <repeat name="variables">
4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	60 <param name="value" value="xyz"/>
4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	61 </repeat>
4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	62 <repeat name="variables">
4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	63 <param name="value" value="0.1"/>
4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	64 </repeat>
4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	65 <output name="outfile">
4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	66 <assert_contents>
4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	67 <has_line_matching expression="^xyz.*" n="6"/>
4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	68 </assert_contents>
4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	69 </output>
4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	70 </test>
4 56e80527c482 Uploaded bgruening parents: 3 diff changeset	71 </tests>
56e80527c482 Uploaded bgruening parents: 3 diff changeset	72 <help>
56e80527c482 Uploaded bgruening parents: 3 diff changeset	73 <![CDATA[
0 ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	74 What it does
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	75
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	76 This tool runs the unix awk command on the selected data file.
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	77
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	78 .. class:: infomark
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	79
7 d64eace4f9f3 Uploaded bgruening parents: 6 diff changeset	80 TIP:
1 a4ad586d1403 Uploaded bgruening parents: 0 diff changeset	81
7 d64eace4f9f3 Uploaded bgruening parents: 6 diff changeset	82 This tool uses the extended regular expression syntax (not the perl syntax).
1 a4ad586d1403 Uploaded bgruening parents: 0 diff changeset	83 \\d, \\w, \\s etc. are not supported.
0 ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	84
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	85
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	86 Further reading
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	87
14 7725ab6dab67 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit b'e6ee273f75fff61d1e419283fa8088528cf59470\n' bgruening parents: 13 diff changeset	88 - Awk by Example (http://www.ibm.com/developerworks/linux/library/l-awk1/index.html)
0 ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	89 - Long AWK tutorial (http://www.grymoire.com/Unix/Awk.html)
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	90
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	91 -----
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	92
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	93 AWK programs
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	94
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	95 Most AWK programs consist of patterns (i.e. rules that match lines of text) and actions (i.e. commands to execute when a pattern matches a line).
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	96
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	97 The basic form of AWK program is::
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	98
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	99 pattern { action 1; action 2; action 3; }
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	100
29 4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	101 Variables
4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	102
4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	103 In order to allow parametrization in workflows, the tool allows to specify values for variables that can be used in AWK program.
4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	104 that will be named VAR1, VAR2, ...
4f7cade041cb planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 4dd118c84ed4d6157303e71438c24446ec4b4f31 bgruening parents: 27 diff changeset	105
0 ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	106
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	107 Pattern Examples
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	108
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	109 - $2 == "chr3" will match lines whose second column is the string 'chr3'
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	110 - $5-$4>23 will match lines that after subtracting the value of the fourth column from the value of the fifth column, gives value alrger than 23.
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	111 - /AG..AG/ will match lines that contain the regular expression AG..AG (meaning the characeters AG followed by any two characeters followed by AG). (This is the way to specify regular expressions on the entire line, similar to GREP.)
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	112 - $7 ~ /A{4}U/ will match lines whose seventh column contains 4 consecutive A's followed by a U. (This is the way to specify regular expressions on a specific field.)
6 8928e6d1e7ba Uploaded bgruening parents: 4 diff changeset	113 - 10000 < $4 && $4 < 20000 will match lines whose fourth column value is larger than 10,000 but smaller than 20,000
18 1e974b82380d planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 0ba37c1f33eeb1c77b4d9363d681fe522d9f7fe7 bgruening parents: 15 diff changeset	114 - BEGIN will be executed once only, before the first input record is read.
0 ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	115 - If no pattern is specified, all lines match (meaning the action part will be executed on all lines).
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	116
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	117
15 74aae7d6cb09 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 3103ebed1a420c7d3415b67ef532ea579edf9faa bgruening parents: 14 diff changeset	118
0 ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	119 Action Examples
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	120
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	121 - { print } or { print $0 } will print the entire input line (the line that matched in pattern). $0 is a special marker meaning 'the entire line'.
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	122 - { print $1, $4, $5 } will print only the first, fourth and fifth fields of the input line.
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	123 - { print $4, $5-$4 } will print the fourth column and the difference between the fifth and fourth column. (If the fourth column was start-position in the input file, and the fifth column was end-position - the output file will contain the start-position, and the length).
15 74aae7d6cb09 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 3103ebed1a420c7d3415b67ef532ea579edf9faa bgruening parents: 14 diff changeset	124 - { FS = "," } can be used to change the field separator (delimeter) for parsing the input file.
0 ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	125 - If no action part is specified (not even the curly brackets) - the default action is to print the entire line.
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	126
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	127
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	128 AWK's Regular Expression Syntax
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	129
7 d64eace4f9f3 Uploaded bgruening parents: 6 diff changeset	130 The select tool searches the data for lines containing or not containing a match to the given pattern. A Regular Expression is a pattern descibing a certain amount of text.
0 ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	131
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	132 - *( ) { } [ ] . ? + \ ^ $ are all special characters. \\** can be used to "escape" a special character, allowing that special character to be searched for.
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	133 - ^ matches the beginning of a string(but not an internal line).
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	134 - ( .. ) groups a particular pattern.
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	135 - { n or n, or n,m } specifies an expected number of repetitions of the preceding pattern.
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	136
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	137 - {n} The preceding item is matched exactly n times.
7 d64eace4f9f3 Uploaded bgruening parents: 6 diff changeset	138 - {n,} The preceding item ismatched n or more times.
d64eace4f9f3 Uploaded bgruening parents: 6 diff changeset	139 - {n,m} The preceding item is matched at least n times but not more than m times.
0 ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	140
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	141 - [ ... ] creates a character class. Within the brackets, single characters can be placed. A dash (-) may be used to indicate a range such as a-z.
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	142 - . Matches any single character except a newline.
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	143 - ***** The preceding item will be matched zero or more times.
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	144 - ? The preceding item is optional and matched at most once.
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	145 - + The preceding item will be matched one or more times.
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	146 - ^ has two meaning:
7 d64eace4f9f3 Uploaded bgruening parents: 6 diff changeset	147 - matches the beginning of a line or string.
0 ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	148 - indicates negation in a character class. For example, [^...] matches every character except the ones inside brackets.
ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	149 - $ matches the end of a line or string.
7 d64eace4f9f3 Uploaded bgruening parents: 6 diff changeset	150 - \\| Separates alternate possibilities.
0 ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	151
4 56e80527c482 Uploaded bgruening parents: 3 diff changeset	152 ]]>
1 a4ad586d1403 Uploaded bgruening parents: 0 diff changeset	153 </help>
14 7725ab6dab67 planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit b'e6ee273f75fff61d1e419283fa8088528cf59470\n' bgruening parents: 13 diff changeset	154 <expand macro="citations" />
0 ec66f9d90ef0 initial uploaded bgruening parents: diff changeset	155 </tool>

Mercurial > repos > bgruening > text_processing

annotate awk.xml @ 29:4f7cade041cb draft default tip