Mercurial > repos > pablocarb > synbiodesign
comparison README.md @ 0:ac027c9ace4d draft
planemo upload commit 9e24fae395aeaca30c5bcdef80a21b7decb04042-dirty
| author | pablocarb |
|---|---|
| date | Mon, 29 Apr 2019 09:49:36 -0400 |
| parents | |
| children | 856bd14e6e96 |
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| 1 # galaxy_selenzyme | |
| 2 | |
| 3 Creating a tool within Galaxy to run Selenzyme. | |
| 4 | |
| 5 See: | |
| 6 | |
| 7 * Tutorial to create a Galaxy tool: https://galaxyproject.org/admin/tools/add-tool-tutorial/ | |
| 8 * How to install it in the Galaxy container: https://github.com/bgruening/docker-galaxy-stable | |
| 9 * Example for Uniprot: https://toolshed.g2.bx.psu.edu/repository?repository_id=c8774310981b07c5 | |
| 10 | |
| 11 Plan: | |
| 12 - [x] Create a basic command line tool using Python `requests` that submits a the reaction SMILES and gets the predicted sequences. | |
| 13 - [x] Create a Galaxy Tool XML file. | |
| 14 - [x] Check that the Galaxy container has `requests` installed, otherwise add to the `docker-compose` file. | |
| 15 - [x] Mount the folder with the tool in the container. | |
| 16 - [x] Install the tool in Galaxy. | |
| 17 - [ ] Create a tool using Galaxy XML that post JSON request and receives a JSON response (no local tool running in the Galaxy server). | |
| 18 - [ ] Submit the purely XML tool to the [Galaxy Tool Shed](https://toolshed.g2.bx.psu.edu/). |