# HG changeset patch
# User bjoern-gruening
# Date 1331801634 14400
# Node ID e850a63e5aedb7233f1d9bcd4273d03eecedb1b9
initial uploaded
diff -r 000000000000 -r e850a63e5aed readme.txt
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/readme.txt Thu Mar 15 04:53:54 2012 -0400
@@ -0,0 +1,67 @@
+Galaxy wrapper for sed
+======================
+
+This wrapper is copyright 2012 by Björn Grüning.
+
+This is a wrapper for the sed command line tool.
+
+sed is a stream editor included in every unix-derived operating system.
+That wrapper only uses a small subset of the sed functionality. Its only a wrapper for:
+
+sed -r '$pattern' $input
+
+
+WARNING:
+========
+
+No syntax check and sanitising will happen in that wrapper. This wrapper may harm your computer ;)
+Nevertheless, i think it can be useable for some installations.
+
+
+Installation
+============
+
+sed should be available on every unix derived operating system and belongs to the classical unix programms.
+No further installation is requiered.
+
+For more information have a look at the following pages:
+
+http://en.wikipedia.org/wiki/Sed
+http://www.gnu.org/software/sed/manual/sed.html
+
+To install the wrapper copy the sed folder in the galaxy tools
+folder and modify the tools_conf.xml file to make the tool available to Galaxy.
+For example:
+
+
+
+
+
+
+History
+=======
+
+v0.1 - Initial public release
+
+
+Wrapper Licence (MIT/BSD style)
+===============================
+
+Permission to use, copy, modify, and distribute this software and its
+documentation with or without modifications and for any purpose and
+without fee is hereby granted, provided that any copyright notices
+appear in all copies and that both those copyright notices and this
+permission notice appear in supporting documentation, and that the
+names of the contributors or copyright holders not be used in
+advertising or publicity pertaining to distribution of the software
+without specific prior permission.
+
+THE CONTRIBUTORS AND COPYRIGHT HOLDERS OF THIS SOFTWARE DISCLAIM ALL
+WARRANTIES WITH REGARD TO THIS SOFTWARE, INCLUDING ALL IMPLIED
+WARRANTIES OF MERCHANTABILITY AND FITNESS, IN NO EVENT SHALL THE
+CONTRIBUTORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY SPECIAL, INDIRECT
+OR CONSEQUENTIAL DAMAGES OR ANY DAMAGES WHATSOEVER RESULTING FROM LOSS
+OF USE, DATA OR PROFITS, WHETHER IN AN ACTION OF CONTRACT, NEGLIGENCE
+OR OTHER TORTIOUS ACTION, ARISING OUT OF OR IN CONNECTION WITH THE USE
+OR PERFORMANCE OF THIS SOFTWARE.
+
diff -r 000000000000 -r e850a63e5aed sed.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/sed.xml Thu Mar 15 04:53:54 2012 -0400
@@ -0,0 +1,49 @@
+
+ of text lines with regular expressions (sed)
+ sed -r '$pattern' $input > $outfile
+
+
+
+
+
+
+
+
+
+ sed
+
+
+
+
+
+
+.. class:: warningmark
+
+Use with caution! Its a plain wrapper around **sed** and the input is not sanitized.
+
+
+-----
+
+**What it does**
+
+Changes every line of a text file according to a given regular expression.
+
+-----
+
+**Syntax**
+
+Use the **sed**-syntax -> **s/find-pattern/replace-pattern/**
+
+**Example**
+
+- **s/x/-/** Replace all **x** with **-**.
+
+- **s/_.*//** Splits a string after **_** and replaces the rest with nothing.
+- **s/[^_]*_*//** Splits a string after **_** and replaces the first part with nothing.
+
+- **s/\\s.*//** Splits a string after whitespaces and replaces the rest with nothing.
+- **s/\\S*\\s*//** Splits a string after whitespaces and replaces the first part with nothing.
+
+
+
+
diff -r 000000000000 -r e850a63e5aed tool_conf.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_conf.xml Thu Mar 15 04:53:54 2012 -0400
@@ -0,0 +1,4 @@
+
+
+
+