diff options
Diffstat (limited to 'gn3/api/rqtl.py')
| -rw-r--r-- | gn3/api/rqtl.py | 7 |
1 files changed, 4 insertions, 3 deletions
diff --git a/gn3/api/rqtl.py b/gn3/api/rqtl.py index 38f4c1e..ebb746c 100644 --- a/gn3/api/rqtl.py +++ b/gn3/api/rqtl.py @@ -6,7 +6,6 @@ from flask import current_app from flask import jsonify from flask import request -from gn3.commands import run_cmd from gn3.computations.rqtl import generate_rqtl_cmd, process_rqtl_output, process_perm_output from gn3.computations.gemma import do_paths_exist @@ -45,13 +44,15 @@ run the rqtl_wrapper script and return the results as JSON ) rqtl_output = {} - if not os.path.isfile(os.path.join(current_app.config.get("TMPDIR"), "output", rqtl_cmd.get('output_file'))): + if not os.path.isfile(os.path.join(current_app.config.get("TMPDIR"), + "output", rqtl_cmd.get('output_file'))): os.system(rqtl_cmd.get('rqtl_cmd')) rqtl_output['results'] = process_rqtl_output(rqtl_cmd.get('output_file')) rqtl_output['results'] = process_rqtl_output(rqtl_cmd.get('output_file')) if int(rqtl_kwargs['nperm']) > 0: - rqtl_output['perm_results'], rqtl_output['suggestive'], rqtl_output['significant'] = process_perm_output(rqtl_cmd.get('output_file')) + rqtl_output['perm_results'], rqtl_output['suggestive'], rqtl_output['significant'] = \ + process_perm_output(rqtl_cmd.get('output_file')) return jsonify(rqtl_output) |