added tee to see output of command logs

ersilia-os · Jul 11, 2023 · b37e844 · b37e844
1 parent a4b2b64
commit b37e844
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Showing 3 changed files with 3 additions and 3 deletions.
diff --git a/ersilia/utils/conda.py b/ersilia/utils/conda.py
@@ -393,7 +393,7 @@ def run_commandlines(self, environment, commandlines):
 
         tmp_folder = tempfile.mkdtemp(prefix="ersilia-")
         tmp_log = os.path.join(tmp_folder, "command_outputs.log")
-        cmd = "bash {0} > {1} 2>&1".format(tmp_script, tmp_log)
+        cmd = "bash {0} 2>&1 | tee -a {1}".format(tmp_script, tmp_log)
         logger.debug("Running {0}".format(cmd))
         run_command(cmd)
         with open(tmp_log, "r") as f:

diff --git a/ersilia/utils/exceptions_utils/exceptions.py b/ersilia/utils/exceptions_utils/exceptions.py
@@ -93,7 +93,7 @@ def run_from_terminal(self):
         tmp_folder = tempfile.mkdtemp(prefix="ersilia-")
         log_file = os.path.join(tmp_folder, "terminal.log")
         run_command("ersilia example {0} -n 3 -f {1}".format(self.model_id, input_file))
-        cmd = "bash {0} {1} {2} {3} > {4} 2>&1 ".format(
+        cmd = "bash {0} {1} {2} {3} 2>&1 | tee -a {4}".format(
             exec_file, framework_dir, input_file, output_file, log_file
         )
         run_command(cmd)

diff --git a/ersilia/utils/venv.py b/ersilia/utils/venv.py
@@ -59,7 +59,7 @@ def run_commandlines(self, environment, commandlines):
         logger.debug("Running {0}".format(tmp_script))  #
 
         # run_command("bash {0}".format(tmp_script))
-        run_command("bash {0} > {1} 2>&1".format(tmp_script, tmp_log))  #
+        run_command("bash {0} 2>&1 | tee -a {1}".format(tmp_script, tmp_log))  #
         with open(tmp_log, "r") as f:
             log_file = f.read()
         logger.debug(log_file)