removed commented lines

dags/dag9_tenx_single_cell_immune_profiling.py

@@ -307,81 +307,6 @@ with dag:
   load_scanpy_report_for_sc_5p_to_db >> upload_scanpy_report_for_sc_5p_to_box
   run_scanpy_for_sc_5p >> upload_cellbrowser_for_sc_5p_to_ftp
   ## TASK
-  """
-  run_scirpy_for_vdj = \
-    PythonOperator(
-      task_id='run_scirpy_for_vdj',
-      dag=dag,
-      queue='hpc_4G',
-      python_callable=run_singlecell_notebook_wrapper_func,
-      params={'cellranger_xcom_key':'cellranger_output',
-              'cellranger_xcom_pull_task':'run_cellranger',
-              'scanpy_timeout':1200,
-              'allow_errors':False,
-              'kernel_name':'python3',
-              'analysis_name':'scirpy',
-              'vdj_dir':'vdj',
-              'count_dir':'count',
-              'output_notebook_key':'scirpy_notebook',
-              'analysis_description_xcom_pull_task':'fetch_analysis_info',
-              'analysis_description_xcom_key':'analysis_description'})
-  load_cellranger_vdj_matrics_to_db = \
-    PythonOperator(
-      task_id='load_cellranger_vdj_matrics_to_db',
-      dag=dag,
-      queue='hpc_4G',
-      python_callable=load_cellranger_metrices_to_collection,
-      params={'cellranger_xcom_key':'cellranger_output',
-              'cellranger_xcom_pull_task':'run_cellranger',
-              'collection_type':'CELLRANGER_MULTI',
-              'collection_name_task':'load_cellranger_result_to_db',
-              'collection_name_key':'sample_igf_id',
-              'metrics_summary_file':'vdj/metrics_summary.csv',
-              'attribute_prefix':'CELLRANGER_VDJ'})
-  load_scirpy_report_for_vdj_to_db = \
-    PythonOperator(
-      task_id='load_scirpy_report_for_vdj_to_db',
-      dag=dag,
-      queue='hpc_4G',
-      python_callable=load_analysis_files_func,
-      params={'collection_name_task':'load_cellranger_result_to_db',
-              'collection_name_key':'sample_igf_id',
-              'file_name_task':'run_scirpy_for_vdj',
-              'file_name_key':'scirpy_notebook',
-              'analysis_name':'scirpy_vdj',
-              'collection_type':'SCIRPY_VDJ_HTML',
-              'collection_table':'sample',
-              'output_files_key':'output_db_files'})
-  upload_scirpy_report_for_vdj_to_ftp = \
-    PythonOperator(
-      task_id='upload_scirpy_report_for_vdj_to_ftp',
-      dag=dag,
-      queue='hpc_4G',
-      python_callable=ftp_files_upload_for_analysis,
-      params={'xcom_pull_task':'load_scirpy_report_for_vdj_to_db',
-              'xcom_pull_files_key':'output_db_files',
-              'collection_name_task':'load_cellranger_result_to_db',
-              'collection_name_key':'sample_igf_id',
-              'collection_type':'FTP_SCIRPY_VDJ_HTML',
-              'collection_table':'sample',
-              'collect_remote_file':True})
-  upload_scirpy_report_for_vdj_to_box = \
-    PythonOperator(
-      task_id='upload_scirpy_report_for_vdj_to_box',
-      dag=dag,
-      queue='hpc_4G',
-      python_callable=upload_analysis_file_to_box,
-      params={'xcom_pull_task':'load_scirpy_report_for_vdj_to_db',
-              'xcom_pull_files_key':'output_db_files',
-              'analysis_tag':'scirpy_vdj_single_sample_report'})
-  ## PIPELINE
-  decide_analysis_branch >> run_scirpy_for_vdj
-  run_scirpy_for_vdj >> load_scirpy_report_for_vdj_to_db
-  run_scirpy_for_vdj >> load_cellranger_vdj_matrics_to_db
-  load_scirpy_report_for_vdj_to_db >> upload_scirpy_report_for_vdj_to_ftp
-  load_scirpy_report_for_vdj_to_db >> upload_scirpy_report_for_vdj_to_box
-  """
-  ## TASK
   run_scirpy_for_vdj_b = \
     PythonOperator(
       task_id='run_scirpy_for_vdj_b',