diff options
Diffstat (limited to 'gn3/api/rqtl.py')
| -rw-r--r-- | gn3/api/rqtl.py | 13 |
1 files changed, 6 insertions, 7 deletions
diff --git a/gn3/api/rqtl.py b/gn3/api/rqtl.py index 82cf34f..7756310 100644 --- a/gn3/api/rqtl.py +++ b/gn3/api/rqtl.py @@ -1,5 +1,4 @@ -import os - +"""Endpoints for running the rqtl cmd""" from flask import Blueprint from flask import current_app from flask import jsonify @@ -12,8 +11,10 @@ rqtl = Blueprint("rqtl", __name__) @rqtl.route("/compute", methods=["POST"]) def compute(): - working_dir = os.path.join(current_app.config.get("TMPDIR")) + """Given at least a geno_file and pheno_file, generate and +run the rqtl_wrapper script and return the results as JSON + """ genofile = request.form['geno_file'] phenofile = request.form['pheno_file'] @@ -28,10 +29,8 @@ def compute(): rqtl_kwargs[kwarg] = request.form[kwarg] results = generate_rqtl_cmd( - rqtl_wrapper_cmd = current_app.config.get("RQTL_WRAPPER_CMD"), - output_dir = current_app.config.get('TMPDIR'), - rqtl_wrapper_kwargs = rqtl_kwargs + rqtl_wrapper_cmd=current_app.config.get("RQTL_WRAPPER_CMD"), + rqtl_wrapper_kwargs=rqtl_kwargs ) return jsonify(results) - |