remove prints

fusion_report.log.2023-11-24

@@ -0,0 +1,31 @@
+2023-11-24 14:12:33,234 - CRITICAL - fusion_report.common.net - table "mbca" already exists
+Traceback (most recent call last):
+ File "/Users/annick.renevey/anaconda3/envs/fusion-report/lib/python3.9/site-packages/fusion_report-2.1.5-py3.9.egg/fusion_report/common/db.py", line 61, in setup
+ self.create_database()
+ File "/Users/annick.renevey/anaconda3/envs/fusion-report/lib/python3.9/site-packages/fusion_report-2.1.5-py3.9.egg/fusion_report/common/db.py", line 84, in create_database
+ self.connection.executescript(schema.read().lower())
+sqlite3.OperationalError: table "mbca" already exists
+
+During handling of the above exception, another exception occurred:
+
+Traceback (most recent call last):
+ File "/Users/annick.renevey/anaconda3/envs/fusion-report/lib/python3.9/site-packages/fusion_report-2.1.5-py3.9.egg/fusion_report/app.py", line 72, in run
+ Download(params)
+ File "/Users/annick.renevey/anaconda3/envs/fusion-report/lib/python3.9/site-packages/fusion_report-2.1.5-py3.9.egg/fusion_report/download.py", line 23, in __init__
+ self.download_all(params)
+ File "/Users/annick.renevey/anaconda3/envs/fusion-report/lib/python3.9/site-packages/fusion_report-2.1.5-py3.9.egg/fusion_report/download.py", line 42, in download_all
+ Net.get_mitelman(self, return_err)
+ File "/Users/annick.renevey/anaconda3/envs/fusion-report/lib/python3.9/site-packages/fusion_report-2.1.5-py3.9.egg/fusion_report/common/net.py", line 204, in get_mitelman
+ db.setup(files, delimiter="\t", skip_header=False, encoding="ISO-8859-1")
+ File "/Users/annick.renevey/anaconda3/envs/fusion-report/lib/python3.9/site-packages/fusion_report-2.1.5-py3.9.egg/fusion_report/common/db.py", line 79, in setup
+ raise DbException(ex)
+fusion_report.common.exceptions.db.DbException: table "mbca" already exists
+
+During handling of the above exception, another exception occurred:
+
+Traceback (most recent call last):
+ File "/Users/annick.renevey/Projects/fusion-report/./bin/fusion_report", line 13, in <module>
+ app.run()
+ File "/Users/annick.renevey/anaconda3/envs/fusion-report/lib/python3.9/site-packages/fusion_report-2.1.5-py3.9.egg/fusion_report/app.py", line 79, in run
+ raise AppException(ex)
+fusion_report.common.exceptions.app.AppException: table "mbca" already exists

fusion_report.log.2023-11-27

@@ -0,0 +1,31 @@
+2023-11-27 10:01:30,030 - CRITICAL - fusion_report.common.net - table "mbca" already exists
+Traceback (most recent call last):
+ File "/Users/annick.renevey/anaconda3/envs/fusion-report/lib/python3.9/site-packages/fusion_report-2.1.5-py3.9.egg/fusion_report/common/db.py", line 61, in setup
+ self.create_database()
+ File "/Users/annick.renevey/anaconda3/envs/fusion-report/lib/python3.9/site-packages/fusion_report-2.1.5-py3.9.egg/fusion_report/common/db.py", line 84, in create_database
+ self.connection.executescript(schema.read().lower())
+sqlite3.OperationalError: table "mbca" already exists
+
+During handling of the above exception, another exception occurred:
+
+Traceback (most recent call last):
+ File "/Users/annick.renevey/anaconda3/envs/fusion-report/lib/python3.9/site-packages/fusion_report-2.1.5-py3.9.egg/fusion_report/app.py", line 72, in run
+ Download(params)
+ File "/Users/annick.renevey/anaconda3/envs/fusion-report/lib/python3.9/site-packages/fusion_report-2.1.5-py3.9.egg/fusion_report/download.py", line 23, in __init__
+ self.download_all(params)
+ File "/Users/annick.renevey/anaconda3/envs/fusion-report/lib/python3.9/site-packages/fusion_report-2.1.5-py3.9.egg/fusion_report/download.py", line 42, in download_all
+ Net.get_mitelman(self, return_err)
+ File "/Users/annick.renevey/anaconda3/envs/fusion-report/lib/python3.9/site-packages/fusion_report-2.1.5-py3.9.egg/fusion_report/common/net.py", line 204, in get_mitelman
+ db.setup(files, delimiter="\t", skip_header=False, encoding="ISO-8859-1")
+ File "/Users/annick.renevey/anaconda3/envs/fusion-report/lib/python3.9/site-packages/fusion_report-2.1.5-py3.9.egg/fusion_report/common/db.py", line 79, in setup
+ raise DbException(ex)
+fusion_report.common.exceptions.db.DbException: table "mbca" already exists
+
+During handling of the above exception, another exception occurred:
+
+Traceback (most recent call last):
+ File "/Users/annick.renevey/Projects/fusion-report/./bin/fusion_report", line 13, in <module>
+ app.run()
+ File "/Users/annick.renevey/anaconda3/envs/fusion-report/lib/python3.9/site-packages/fusion_report-2.1.5-py3.9.egg/fusion_report/app.py", line 79, in run
+ raise AppException(ex)
+fusion_report.common.exceptions.app.AppException: table "mbca" already exists

fusion_report/modules/index_summary/index_summary.py

@@ -25,10 +25,8 @@ def tool_detection(self) -> List[List[Any]]:
  counts["together"] = 0
  running_tools_count: int = len(running_tools)
  for fusion in self.manager.fusions:
- print(fusion.name)
  fusion_tools = fusion.tools.keys()
  for tool in fusion_tools:
- print(tool)
  counts[tool] += 1
  # intersection
  if len(fusion_tools) == running_tools_count: