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bj.py
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bj.py
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#!/usr/bin/env python3
# -*- coding: utf-8 -*-
import curses
import re
import os
import sys
import json
import subprocess
# if an argument is passed to bj then only show jobs matching that job description
job_description_filter = False
if len(sys.argv) > 1:
job_description_filter = sys.argv[1]
# function definitions
def parse_bytes_output(bytes_string):
if bytes_string.endswith("bytes"):
bytes_string = bytes_string.replace("Gbytes"," * 1000000000")
bytes_string = bytes_string.replace("Mbytes"," * 1000000")
bytes_string = bytes_string.replace("Kbytes"," * 1000")
bytes_string = eval(bytes_string)
elif bytes_string.endswith(('G','M','K')):
bytes_string = bytes_string.replace("G"," * 1000000000")
bytes_string = bytes_string.replace("M"," * 1000000")
bytes_string = bytes_string.replace("K"," * 1000")
bytes_string = eval(bytes_string)
return(int(bytes_string))
def reduce_units(stringOne, stringTwo):
stringOne = str(stringOne)
stringTwo = str(stringTwo)
if (stringOne.endswith("0") and stringTwo.endswith("0")):
stringOneLn = len(stringOne) - len(stringOne.rstrip('0'))
stringTwoLn = len(stringTwo) - len(stringTwo.rstrip('0'))
k_count = 0
while stringOne.endswith('000'):
stringOne = re.sub("000$", "", stringOne)
k_count = k_count + 1
stringOne = stringOne + ('k'*k_count)
stringOne = stringOne.replace("kkk", "Gb")
stringOne = stringOne.replace("kk", "Mb")
stringOne = stringOne.replace("k", "Kb")
stringTwo = stringTwo.replace("000", "k")
stringTwo = stringTwo.replace("kkk", "Gb")
stringTwo = stringTwo.replace("kk", "Mb")
stringTwo = stringTwo.replace("k", "Kb")
stringOne = re.sub(r"([0-9]+)([0-9]{3})([G|M|K]b)","\g<1>.\g<2>\g<3>", stringOne)
if '.' in stringOne:
stringOne = re.sub(r"0*?Gb$","Tb", stringOne)
stringOne = re.sub(r"0*?Mb$","Gb", stringOne)
stringOne = re.sub(r"0*?Kb$","Mb", stringOne)
stringTwo = re.sub(r"([0-9]+)([0-9]{3})([G|M|K]b)","\g<1>.\g<2>\g<3>", stringTwo)
if '.' in stringTwo:
stringTwo = re.sub(r"0*?Gb$","Tb", stringTwo)
stringTwo = re.sub(r"0*?Mb$","Gb", stringTwo)
stringTwo = re.sub(r"0*?Kb$","Mb", stringTwo)
fractionString = "{}/{}".format(stringOne, stringTwo)
return(fractionString)
screen = curses.initscr()
screen.nodelay(1)
# Update the buffer, adding text at different locations
curses.curs_set(0)
curses.noecho()
curses.start_color()
curses.use_default_colors()
screen.keypad(1)
curses.mousemask(1)
# curses.init_pair(1,-1,curses.COLOR_BLUE) # blue bg
curses.init_pair(1,245,-1) # blue bg
curses.init_pair(2,curses.COLOR_YELLOW,-1) # yellow
curses.init_pair(3,197,-1) # Red
curses.init_pair(4,248,-1) # Grey
curses.init_pair(5,28,-1) # Green
screen_refresh_it = 0
email_scheduled = False
# filter bjobs request to only project name if passed as argument
if job_description_filter is False:
bjobs_command = ['bjobs', '-a', '-json', '-o', 'jobid stat queue kill_reason dependency exit_reason time_left %complete run_time max_mem memlimit nthreads exit_code']
else:
bjobs_command = ['bjobs', '-a', '-Jd', job_description_filter, '-json', '-o', 'jobid stat queue kill_reason dependency exit_reason time_left %complete run_time max_mem memlimit nthreads exit_code']
while True:
screen_refresh_it = screen_refresh_it + 1
bjobs_json = subprocess.check_output(bjobs_command)
bjobs_json = bjobs_json.decode(sys.stdout.encoding)
bjobs_json = json.loads(bjobs_json)
# parse information to display
jobsrunning = bjobs_json['JOBS']
pend_count = 0
run_count = 0
exit_count = 0
done_count = 0
height,width = screen.getmaxyx()
stopHeight = int(height)-2
# screen.addstr(0, 0, "MENU GOES HERE : {}".format(screen_refresh_it),curses.color_pair(1))
header = "JOB ID\tSTATUS\tQUEUE\t\tRAM USAGE\tTIMELIMIT"
screen.addstr(0, 0, header,curses.color_pair(2))
i = 1
jobid_set = set()
for listnb in range(0,len(bjobs_json['RECORDS'])):
jobid = bjobs_json['RECORDS'][listnb]['JOBID']
jobid_set.add(jobid)
stats = bjobs_json['RECORDS'][listnb]['STAT']
if stats == "PEND":
pend_count = pend_count + 1
continue
queue = bjobs_json['RECORDS'][listnb]['QUEUE']
time_left = bjobs_json['RECORDS'][listnb]['TIME_LEFT']
completed = bjobs_json['RECORDS'][listnb]['%COMPLETE'].replace(" L","")
line_output = "{}\t{}\t{}".format(jobid, stats, queue)
# Extra columns to display if there is information
max_mem = bjobs_json['RECORDS'][listnb]['MAX_MEM']
memlimit = bjobs_json['RECORDS'][listnb]['MEMLIMIT']
if max_mem != "":
max_mem = parse_bytes_output(max_mem)
memlimit = parse_bytes_output(memlimit)
memusage = reduce_units(max_mem, memlimit)
memusage = reduce_units(max_mem, memlimit)
line_output+= "\t{}".format(memusage)
else:
line_output+= "\t\t\t"
exit_reason = bjobs_json['RECORDS'][listnb]['EXIT_REASON']
if exit_reason != None and exit_reason != "":
line_output+= "\t{}".format(exit_reason)
# format time_left
if stats == "RUN":
line_output+= "\t{}".format(completed)
if stats == "DONE":
done_count = done_count + 1
elif stats == "RUN":
run_count = run_count + 1
elif stats == "EXIT":
exit_count = exit_count + 1
# generate result line to display with color based on status
if i < stopHeight-1:
if stats == "DONE":
# $(tput setaf 28)
screen.addstr(i, 1, line_output, curses.color_pair(5))
elif stats == "RUN":
# $(tput setaf 248)
screen.addstr(i, 1, line_output, curses.color_pair(4))
elif stats == "EXIT":
# $(tput setaf 197)
screen.addstr(i, 1, line_output, curses.color_pair(3))
else:
screen.addstr(i, 1, line_output)
i = i + 1
status = "{} still pending, {} running, {} done, {} exited".format(pend_count, run_count, done_count, exit_count)
screen.addstr(stopHeight, 1, status)
if job_description_filter != False:
JdstartPos = width - len(job_description_filter)
screen.addstr(stopHeight, JdstartPos, job_description_filter)
if email_scheduled is True:
screen.addstr(stopHeight+1, 0, "Exit [q] | " ,curses.color_pair(1))
screen.addstr(stopHeight+1, 11, "Email Scheduled", curses.color_pair(5))
screen.addstr(stopHeight+1, 26, " | Killall [k]", curses.color_pair(1))
else:
screen.addstr(stopHeight+1, 0, "Exit [q] | Email [e] | Killall [k]" ,curses.color_pair(1))
screen.refresh()
screen.timeout(5000)
ch = screen.getch()
if ch == ord('q'): break
if ch == curses.KEY_MOUSE:
_, mx, my, _, _ = curses.getmouse()
y, x = screen.getyx()
screen.addstr(0, 0, "{} : {}".format(my, mx))
if ch == ord('e'):
email_scheduled = True
bwait_cmd = ') && ended('.join(jobid_set)
bwait_cmd = 'ended(' + bwait_cmd + ')'
bwait_cmd = "bwait -w '" + bwait_cmd + "'"
os.system("{} && printf '\n\nThis is an automated email from better-bjobs on ending of all jobs' | mail -s '[BBJ] Farm Jobs Ended' [email protected] & \n echo $! > $HOME/.better-bjobs.bgtasks.txt".format(bwait_cmd))
curses.endwin()