/
rabix_http.py
57 lines (47 loc) · 1.83 KB
/
rabix_http.py
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import json
from flask import Flask, request
from rabix.cli.adapter import CLIJob
from rabix.common.models import Job, process_builder, construct_files
from rabix.common.context import Context
from rabix.cli import init
app = Flask(__name__)
ctx = Context(None)
init(ctx)
def strip_prefix(input_id):
return input_id[input_id.rfind('.') + 1:]
@app.route('/get_command_line', methods=['POST'])
def get_command_line():
data = request.get_json(force=True)
print data
tool = process_builder(ctx, data['tool_cfg'])
inputs = {strip_prefix(k): construct_files(v, tool._inputs[strip_prefix(k)].validator) for k, v in data['input_map'].iteritems()}
job = Job('Fake job ID', tool, inputs, {'cpu': 1, 'mem': 1024}, ctx)
cli_job = CLIJob(job)
res = json.dumps({
'arguments': cli_job.make_arg_list(),
'stdin': cli_job.stdin,
'stdout': cli_job.stdout,
}, indent=2)
print res
return res
@app.route('/get_outputs', methods=['POST'])
def get_outputs():
data = request.get_json(force=True)
tool = process_builder(ctx, data['tool_cfg'])
inputs = {strip_prefix(k): construct_files(v, tool._inputs[strip_prefix(k)].validator) for k, v in data['input_map'].iteritems()}
job = Job('Fake job ID', tool, inputs, {'cpu': 1, 'mem': 1024}, ctx)
cli_job = CLIJob(job)
print data
# status = 'SUCCESS' if data['exit_code'] in data['tool_cfg'].get('successCodes', [0]) else 'FAILURE'
status = 'SUCCESS'
outputs = cli_job.get_outputs(data['job_dir'], job)
if inputs:
key = inputs.keys()[0]
prefix = key[0:key.rfind('.')+1]
outputs = {prefix + k: v for k, v in outputs.iteritems()}
return json.dumps({
'status': status,
'outputs': outputs,
})
if __name__ == '__main__':
app.run(debug=True)