Mercurial > repos > iuc > rp2paths

diff rp2paths.xml @ 1:8b77ca41f6af draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/rp2paths commit c1706f45cf4918846b73069a7e984b771605d3aa
author iuc
date Mon, 29 Sep 2025 15:41:49 +0000
parents d468c3b714e5
children a5fb27520253
line wrap: on
line diff
--- a/rp2paths.xml	Mon Oct 17 21:19:59 2022 +0000
+++ b/rp2paths.xml	Mon Sep 29 15:41:49 2025 +0000
@@ -1,7 +1,7 @@
 <tool id="rp2paths" name="RP2paths" version="@TOOL_VERSION@" profile="21.09">
     <description>Enumerate and seperate the different pathways generated by RetroPath2.0</description>
     <macros>
-        <token name="@TOOL_VERSION@">1.5.0</token>
+        <token name="@TOOL_VERSION@">2.0.0</token>
     </macros>
     <requirements>
         <requirement type="package" version="@TOOL_VERSION@">rp2paths</requirement>
@@ -45,7 +45,10 @@
 ========
 
 
-**RP2paths** extracts the set of heterologous pathways that lies in a metabolic space file outputted by the `RetroPath2.0 workflow <https://www.myexperiment.org/workflows/4987.html>`_ into individual pathways and enumerate them. This analysis is required to ensure that only pathways fulfilling all the precursor needs are retained for further analysis. This tool takes as input a retrosynthesis network in the CSV file produced by `RetroPath2.0 <https://toolshed.g2.bx.psu.edu/view/tduigou/retropath2/9c8ac9980bd6>`_ , and outputs the enumerated pathways (using `EC numbers <https://en.wikipedia.org/wiki/Enzyme_Commission_number>`_ ) as well as the structure of involved chemicals (as SMILES: Simplified Molecular-Input Line-Entry System) in TSV format.
+**RP2paths** extracts the set of heterologous pathways that lies in a metabolic space file outputted by the "RetroPath2.0 workflow" into individual pathways and enumerate them.
+This analysis is required to ensure that only pathways fulfilling all the precursor needs are retained for further analysis.
+This tool takes as input a retrosynthesis network in the CSV file produced by `RetroPath2.0 <https://toolshed.g2.bx.psu.edu/view/tduigou/retropath2/9c8ac9980bd6>`_ ,
+and outputs the enumerated pathways (using `EC numbers <https://en.wikipedia.org/wiki/Enzyme_Commission_number>`_ ) as well as the structure of involved chemicals (as SMILES: Simplified Molecular-Input Line-Entry System) in TSV format.
 
 
 An example of **enumerated pathways** is illustred in the figure below for the production of a target molecule: `Styrene <https://en.wikipedia.org/wiki/Styrene>`_. **Compounds** are represented by their structures, and **reactions** by their `EC numbers <https://en.wikipedia.org/wiki/Enzyme_Commission_number>`_.
@@ -93,4 +96,4 @@
     <citations>
         <citation type="doi">10.1016/j.ymben.2017.12.002</citation>
     </citations>
-</tool>
\ No newline at end of file
+</tool>