Mercurial > repos > bgruening > text_processing
changeset 8:4c752559b236 draft
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/text_processing/text_processing commit 3103ebed1a420c7d3415b67ef532ea579edf9faa
| author | bgruening |
|---|---|
| date | Wed, 12 Jul 2017 14:07:57 -0400 |
| parents | 01ca80da2266 |
| children | 6378f8384f30 |
| files | awk.xml multijoin.xml tac.xml |
| diffstat | 3 files changed, 9 insertions(+), 5 deletions(-) [+] |
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--- a/awk.xml Mon May 22 07:41:58 2017 -0400 +++ b/awk.xml Wed Jul 12 14:07:57 2017 -0400 @@ -80,14 +80,17 @@ - **/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.) - **$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.) - **10000 < $4 && $4 < 20000** will match lines whose fourth column value is larger than 10,000 but smaller than 20,000 +- **BEGIN** will be executed once only, before the first input record is read. - If no pattern is specified, all lines match (meaning the **action** part will be executed on all lines). + **Action Examples** - **{ 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'. - **{ print $1, $4, $5 }** will print only the first, fourth and fifth fields of the input line. - **{ 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). +- **{ FS = "," }** can be used to change the field separator (delimeter) for parsing the input file. - If no action part is specified (not even the curly brackets) - the default action is to print the entire line.
--- a/multijoin.xml Mon May 22 07:41:58 2017 -0400 +++ b/multijoin.xml Wed Jul 12 14:07:57 2017 -0400 @@ -44,7 +44,7 @@ </param> </inputs> <outputs> - <data name="outfile" format_source="first_file" metadata_source="first_file" /> + <data name="outfile" format="tabular" /> </outputs> <tests> <test>
--- a/tac.xml Mon May 22 07:41:58 2017 -0400 +++ b/tac.xml Wed Jul 12 14:07:57 2017 -0400 @@ -70,19 +70,20 @@ Input file: - 0 1 2 3 4 5 # 6 7 8 9 + 0 1 2 3 4 5 # 6 7 8 9 default settings: - 9 8 7 6 # 5 4 3 2 1 0 + 9 8 7 6 # 5 4 3 2 1 0 with option -s 5: - # 6 7 8 9 0 1 2 3 4 5 + + # 6 7 8 9 0 1 2 3 4 5 with option -b and -s 5: - 5 # 6 7 8 9 0 1 2 3 4 + 5 # 6 7 8 9 0 1 2 3 4 @REFERENCES@ ]]>