Merge pull request #58 from xtrojak/generate-job-options

Generate conversion job options

CHANGELOG.md

@@ -6,6 +6,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
 
 ## [dev] - unreleased
 ### Added
+- `generate_options()` function in `Galaxy` submodule to create all possible conversions supported by the tool in a format suitable for the galaxy tool form [#58](https://github.com/RECETOX/MSMetaEnhancer/pull/58)
 ### Changed
 ### Removed
 

MSMetaEnhancer/libs/services/__init__.py

@@ -3,4 +3,4 @@
 from MSMetaEnhancer.libs.services.NLM import NLM
 from MSMetaEnhancer.libs.services.PubChem import PubChem
 
-__all__ = ['CIR', 'CTS', 'NLM', 'PubChem']
+__all__ = ['PubChem', 'CTS', 'CIR', 'NLM']

galaxy/generate_options.py

@@ -0,0 +1,21 @@
+import sys
+import os
+
+# this add to path the home dir, so it can be called from anywhere
+sys.path.append(os.path.split(sys.path[0])[0])
+
+from MSMetaEnhancer.libs.services import *
+from MSMetaEnhancer.libs.services import __all__ as services
+
+
+def generate_options():
+    jobs = []
+    for service in services:
+        jobs += (eval(service)(None).get_conversion_functions())
+
+    for job in jobs:
+        print(f'<option value="{job[0]} {job[1]} {job[2]}">{job[2]}: {job[0]} -> {job[1]}</option>')
+
+
+if __name__ == '__main__':
+    generate_options()