Mercurial > repos > iracooke > sixframe_translate

changeset 3:efd982d2db59 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author simonalpha
date Mon, 05 Jan 2015 17:28:09 -0500
parents 477026629d1b
children cbf4291587c5
files .gitignore README.md repository_dependencies.xml sixframe_translate.xml tool_dependencies.xml
diffstat 5 files changed, 1 insertions(+), 56 deletions(-) [+]
line wrap: on
line diff
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/.gitignore	Mon Jan 05 17:28:09 2015 -0500
@@ -0,0 +1,1 @@
+*.tar.bz2
\ No newline at end of file
--- a/README.md	Tue Mar 18 01:29:19 2014 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,3 +0,0 @@
-# Translate Nucleotide sequences to Protein
-
-
--- a/repository_dependencies.xml	Tue Mar 18 01:29:19 2014 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,4 +0,0 @@
-<?xml version="1.0"?>
-<repositories description="Proteomics datatypes">
-    <repository changeset_revision="25f42af5b73d" name="proteomics_datatypes" owner="iracooke" toolshed="http://testtoolshed.g2.bx.psu.edu" />
- </repositories>
--- a/sixframe_translate.xml	Tue Mar 18 01:29:19 2014 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,43 +0,0 @@
-<tool id="sixframe_translate" name="Generate 6-frame translation" version="1.0.0">
-	<requirements>
-	    <requirement type="package" version="1.2.6">protk</requirement>
-   </requirements>
-
-	<description>Translates DNA/RNA to protein</description>
-
-	<command>
-		sixframe.rb $fasta_file -o $output $strip_header $coords
-	</command>
-
-
-
-
-	<stdio>
-		<exit_code range="1:"   level="fatal"   description="Failure" />
-	</stdio>
-
-	<inputs>	
-		<param name="fasta_file" type="data" format="fasta" label="Uploaded FASTA file" />
-		<param name="strip_header" type="boolean" label="Strip header info" help="" truevalue="--strip-header" falsevalue="" />
-		<param name="coords" type="boolean" label="Write genomic coordinates" help="" truevalue="--coords" falsevalue="" />
-	</inputs>
-
-	<outputs>
-		<data format="fasta" name="output" />
-	</outputs>
-
-
-  <help>
-
-**What it does**
-
-Generates 6 frame translations suitable for proteogenomics workflows
-
-----
-
-**References**
-
-
-  </help>
-
-</tool>
--- a/tool_dependencies.xml	Tue Mar 18 01:29:19 2014 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,6 +0,0 @@
-<?xml version="1.0"?>
-<tool_dependency>
-	<package name="protk" version="1.2.6">
-         <repository changeset_revision="1b21ba7de3e7" name="package_protk_1_2_6" owner="iracooke" toolshed="http://testtoolshed.g2.bx.psu.edu" />
-    </package>
-</tool_dependency>