diff options
Diffstat (limited to 'Code/download_and_map.py')
| -rw-r--r-- | Code/download_and_map.py | 14 |
1 files changed, 13 insertions, 1 deletions
diff --git a/Code/download_and_map.py b/Code/download_and_map.py index bc1c190..ebc742d 100644 --- a/Code/download_and_map.py +++ b/Code/download_and_map.py @@ -15,7 +15,7 @@ # Last reviewed 31 July 2018 # Last revised 10 Feb 2021 -import os, sys, glob, json +import os, signal, sys, glob, json import fnmatch import time import re @@ -349,6 +349,17 @@ def read_run_ids_from_file(fname): return list(set(lst)) +def kill_process(process_name): + try: + for line in os.popen('ps ax | grep ' + process_name + ' | grep -v grep'): + fields = line.split() + if fields[4] == process_name: + pid = fields[0] + os.kill(int(pid), signal.SIGKILL) + return True + except Exception as e: + print(f'{e}') + return False ## main @@ -370,6 +381,7 @@ if not last_session_finished(DOWNLOADED_SRA_ID_LOG_FILE): # last session not fin write_network_log_file(s, UPDATE_NETWORK_LOG_FILE) if age_of_file_in_hours(DOWNLOADED_SRA_ID_LOG_FILE) > 24: # add DONE to the log file anyway append_done(DOWNLOADED_SRA_ID_LOG_FILE) + kill_process('wget') sys.exit() rna_data_info_dict = read_ena_data_info_json(RNA_SEQ_INFO_FILE) # rna_data_info_dict contains only RNA-seq IDs. |