Translator ARS Pass/Fail Testing
This testing framework performs single level pass/Fail analysis on queries it receives from the Test Runner.
ARS_Test Implementation
pip install ARS_Test_Runner
CLI
The command-line interface is the easiest way to run the ARS_Test_Runner After installation, simply type ARS_Test_Runner --help to see required input arguments & options
-
ARS_Test_Runner- env : the environment to run the queries against (dev|ci|test|prod)
- predicate: treats
- runner_setting: creative mode inidicator (inferred)
- expected_output: TopAnswer|Acceptable|BadButForgivable|NeverShow
- biolink_object_aspect_qualifier: activity_or_abundance
- biolink_object_direction_qualifier: increased/decreased
- input_category: input type category (Gene/Chemical)
- input_curie: normalized curie taken from assest.csv
- output_curie: target output curie to do analysis on
-
example:
- for single output (mvp2)
- ARS_Test_Runner --env 'test' --predicate 'affects' --runner_setting '["inferred"]' --expected_output '["TopAnswer"]' --biolink_object_aspect_qualifier 'activity_or_abundance' --biolink_object_direction_qualifier 'increased' --input_category 'biolink:Gene' --input_curie 'NCBIGene:23394' --output_curie '["PUBCHEM.COMPOUND:3821"]'
- for multi outputs (mvp1)
- ARS_Test_Runner --env 'ci' --predicate 'treats' --runner_setting '["inferred"]' --expected_output '["TopAnswer","TopAnswer"]' --input_category 'biolink:Disease' --input_curie 'MONDO:0005301' --output_curie '["PUBCHEM.COMPOUND:107970","UNII:3JB47N2Q2P"]'
- for single output (mvp2)
python
import asyncio
from ARS_Test_Runner.semantic_test import run_semantic_test
asyncio.run(run_semantic_test('ci','treats',['inferred'], ['TopAnswer','TopAnswer'],'','','biolink:Disease', 'MONDO:0005301',['PUBCHEM.COMPOUND:107970','UNII:3JB47N2Q2P']))
asyncio.run(run_semantic_test('ci','affects',['inferred'], ['TopAnswer'],'activity_or_abundance','increased','biolink:Gene' ,'NCBIGene:23394',['PUBCHEM.COMPOUND:3821']))
OR
python semantic_test.py --env 'ci' --predicate 'treats' --runner_setting 'inferred' --expected_output 'TopAnswer' 'TopAnswer' --input_category 'biolink:Disease' --input_curie 'MONDO:0005301' --output_curie 'PUBCHEM.COMPOUND:107970' 'UNI:3JB47N2Q2P'
python semantic_test.py --env 'ci' --predicate 'affects' --runner_setting 'inferred' --expected_output 'TopAnswer' --biolink_object_aspect_qualifier 'activity_or_abundance' --biolink_object_direction_qualifier 'increased' --input_category 'biolink:Gene' --input_curie 'NCBIGene:23394' --output_curie 'PUBCHEM.COMPOUND:3821'
1 maintainer
Download files
Download the file for your platform. If you're not sure which to choose, learn more about installing packages.
Source Distribution
ARS_Test_Runner-0.2.6.tar.gz
(9.0 kB
view details)
Built Distribution
Filter files by name, interpreter, ABI, and platform.
If you're not sure about the file name format, learn more about wheel file names.
Copy a direct link to the current filters
File details
Details for the file ARS_Test_Runner-0.2.6.tar.gz.
File metadata
- Download URL: ARS_Test_Runner-0.2.6.tar.gz
- Upload date:
- Size: 9.0 kB
- Tags: Source
- Uploaded using Trusted Publishing? No
- Uploaded via:
twine/6.1.0 CPython/3.12.3
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 |
075e0c86e78a89573c4eccafb7e16fb8eb8c53f6f340cecbe24efd8de0781cd1
|
|
| MD5 |
eaf318c71cf94cf1a58d185f2a6b4e3d
|
|
| BLAKE2b-256 |
6bc261e663220c5be9dc1b3218c299598c5be9d65a1a8fe21684933dfea131cd
|
File details
Details for the file ARS_Test_Runner-0.2.6-py3-none-any.whl.
File metadata
- Download URL: ARS_Test_Runner-0.2.6-py3-none-any.whl
- Upload date:
- Size: 10.5 kB
- Tags: Python 3
- Uploaded using Trusted Publishing? No
- Uploaded via:
twine/6.1.0 CPython/3.12.3
File hashes
| Algorithm | Hash digest | |
|---|---|---|
| SHA256 |
d8dcc44f53354e03a39967672b3856cae198af6e29048ea4d414bda8a56e3b24
|
|
| MD5 |
b29a6f96d333bfa0799d95238675a788
|
|
| BLAKE2b-256 |
e740db70cef339426cbc54e65874e0648d3615f6cfbcdc1c2c1e9fa2cb2d86ae
|
