# HG changeset patch
# User tduigou
# Date 1681994297 0
# Node ID 0a25e8aaad7cb7773c0e73c5978bb760dc7d9471
# Parent 8d76e86168395b5aa761fb12c25dc8b44bf627bb
planemo upload commit 250fc47bd655aa7d952fb13f0b8e481443465b8f
diff -r 8d76e8616839 -r 0a25e8aaad7c README.md
--- a/README.md Thu Apr 20 12:30:18 2023 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000
@@ -1,34 +0,0 @@
-# RetroPath2-wrapper -- Build a reaction network from a set of source compounds to a set of sink compounds.
-
-The open-source software package RetroPath2-wrapper is available here : https://github.com/brsynth/RetroPath2-wrapper
-
-## How to run RetroPath2 wrapper tests
-
-In order to execute tests on RetroPath2 wrapper, you need to:
-
- - Connect to your galaxy instance in interactive mode:
-
- ```bash
- docker exec -it -u root galaxy_galaxy_1 bash
- ```
- - Copy all the contents of `test-data` folder into your own test-data directory which is located in your local galaxy instance : `/galaxy/test-data`. It contains all the input files and expected output files needed for the tests.
-
- - Install Planemo:
- You can see here the documentation for Planemo Installation : https://planemo.readthedocs.io/en/latest/installation.html
- Note that they recommand to install Planemo by setting up a virtual environment:
-
- ```bash
- python3 -m venv planemo
- . planemo/bin/activate
- pip install -U planemo
- ```
-
- - run the tests:
-
- ```bash
- planemo test --conda_channels conda-forge,brsynth --conda_debug tools/BRSynthTools/RetroPath2-wrapper/wrap.xml
- ```
-
- IMPORTANT: Maybe you will need to remove CONDA from your PATH for the command `planemo test` to run correctly. To do that, you can edit this file `~/.bashrc`, comment this line `PATH="/root/anaconda3/bin:$PATH"` and save changes.
-
- Planemo will output an html test summary `tool_test_output.html`.
\ No newline at end of file
diff -r 8d76e8616839 -r 0a25e8aaad7c config/job_conf.xml
--- a/config/job_conf.xml Thu Apr 20 12:30:18 2023 +0000
+++ b/config/job_conf.xml Thu Apr 20 12:38:17 2023 +0000
@@ -1,1 +1,1 @@
-
+
diff -r 8d76e8616839 -r 0a25e8aaad7c retropath2_wrapper.xml
--- a/retropath2_wrapper.xml Thu Apr 20 12:30:18 2023 +0000
+++ b/retropath2_wrapper.xml Thu Apr 20 12:38:17 2023 +0000
@@ -1,4 +1,4 @@
-
+
Build a reaction network from a set of source compounds to a set of sink compounds
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