I have a launch.sh script which I submit on the cluster with
bsub $settings < launch.sh
This launch.sh bash script looks simplified as the following:
function trap_with_arg() {
func="$1" ; shift
for sig ; do
echo "$ES Installing trap for signal $sig"
trap "$func $sig" "$sig"
done
}
function signalHandler() {
# do stuff depending in what stage the script is
}
# Setup the Trap
trap_with_arg signalHandler SIGINT SIGTERM SIGUSR1 SIGUSR2
./start.sh
mpirun process.sh
./end.sh
Where process.sh calls two binaries (as an example) as
./binaryA
./binaryB
My question is the following:
The cluster already sends SIGUSR1 (approx. 10min before SIGTERM) to the process (I think this is the bash shell running my launch.sh script).
At the moment I catch this signal in the launch.sh script and call some signal handler. The problem is, this signal handler only gets executed (at least what I know) after a running command is finished (e.g. that might be mpirun process.sh or ./start.sh )
How can I forward these signals to make the commands/binaries exit gracefully. Forwarding for example to process.sh (mpirun, as I experienced, already forwards somehow these received signals (how does it do that?)
What is the proper way of forwarding signals, (e.g. also to the binaries binaryA, binaryB ?
I have no really good clue how to do this? Making the commands execute in background, creating a child process?
Thanks for some enlightenment :-)
From bash manual at http://www.gnu.org/software/bash/manual/html_node/Signals.html:
If Bash is waiting for a command to complete and receives a signal for which a trap has been set, the trap will not be executed until the command completes. When Bash is waiting for an asynchronous command via the wait builtin, the reception of a signal for which a trap has been set will cause the wait builtin to return immediately with an exit status greater than 128, immediately after which the trap is executed.
Thus, the solution seems to place commands in background and use "wait":
something &
wait
Related
If I send a signal using kill, it seems to wait until the current program (in this example sleep 1000) finishes running. When I instead send SIGINT via pressing Ctrl+C in the shell, it receives the interrupt immediately however.
What I want, however, is for the interrupt to be received immediately after sending the signal via kill. Also, why does it behave like I would want it to when I press Ctrl+C?
#!/usr/bin/env sh
int_after_a_while() {
local pid=$1
sleep 2
echo "Attempting to kill $pid with SIGINT"
# Here I want to kill the process immediately, but it waits until sleep finishes
kill -s INT $pid
}
trap "echo Interrupt received!" INT
int_after_a_while $$ &
sleep 1000
I would appreciate any help on this issue. Thanks in advance!
As noted in the referenced answer https://unix.stackexchange.com/questions/282525/why-did-my-trap-not-trigger/282631#282631 the shell will normally wait for a utility to complete before running a trap. Some alternatives are:
Start the long running process in the background, then wait for it using the wait builtin. When a trapped signal is received during such a wait, the wait is interrupted and the trap is taken. Unfortunately, the exit status of wait does not distinguish between the child process exiting on a signal and a trap occurring. For example
sleep 1000 &
p=$!
wait "$p"
Send a signal to the whole process group via kill -s INT 0. The effect is much like if the user had pressed Ctrl+C, but may be more extreme than you want if your script is run from another script.
Use a shell such as zsh or FreeBSD sh that supports set -o trapsasync which allows running traps while waiting for a foreground job.
I have a bash script, its contents are:
function foo {
echo "Foo!"
}
function clean {
echo "exiting"
}
trap clean EXIT
trap foo SIGTERM
echo "Starting process with PID: $$"
while :
do
sleep 60
done
I execute this on a terminal with:
./my_script
And then do this on another terminal
kill -SIGTERM my_script_pid # obviously the PID is the one echoed from my_script
I would expect to see the message "Foo!" from the other terminal, but It's not working. SIGKILL works and the EXIT code is also executed.
Using Ctrl-C on the terminal my_script is running on triggers foo normally, but somehow I can't send the signal SIGTERM from another terminal to this one.
Replacing SIGTERM with any other signal doesn't change a thing (besides Ctrl-C not triggering anything, it was actually mapped to SIGUSR1 in the beginning).
It may be worth mentioning that just the signal being trapped is not working, and any other signal is having the default behaviour.
So, what am I missing? Any clues?
EDIT: I also just checked it wasn't a privilege issue (that would be weird as I'm able to send SIGKILL anyway), but it doesn't seem to be that.
Bash runs the trap only after sleep returns.
To understand why, think in C / Unix internals: While the signal is dispatched instantly to bash, the corresponding signal handler that bash has setup only does something like received_sigterm = true.
Only when sleep returns, and the wait system call which bash issued after starting the sleep process returns also, bash resumes its normal work and executes your trap (after noticing received_sigterm).
This is done this way for good reasons: Doing I/O (or generally calling into the kernel) directly from a signal handler generally results in undefined behaviour as far as I know - although I can't tell more about that.
Apart from this technical reason, there is another reason why bash doesn't run the trap instantly: This would actually undermine the fundamental semantics of the shell. Jobs (this includes pipelines) are executed strictly in a sequential manner unless you explicitly mess with background jobs.
The PID that you originally print is for the bash instance that executes your script, not for the sleep process that it is waiting on. During sleep, the signal is likely to be ignored.
If you want to see the effect that you are looking for, replace sleep with a shorter-lived process like ps.
function foo {
echo "Foo!"
}
function clean {
echo "exiting"
}
trap clean EXIT
trap foo SIGTERM
echo "Starting process with PID: $$"
while :
do
ps > /dev/null
done
I want an infinite loop to keep on running, and only temporarily be interrupted by a kill signal. I've tried SIGINT, SIGUSR1, SIGUSR2. All of them seem to halt the loop. I even tried SIGINFO, but that wasn't supported by Linux.
#!/bin/bash
echo $$ > /tmp/pid # Save the pid
function do_something {
echo "I am doing stuff" #let's do this now, and go back to doing the thing that is to be done over and over again.
#exit
}
while :
do
echo "This should be done over and over again, but always wait for someething else to be done in between"
trap do_something SIGINT
while `true`
do
sleep 1 #so we're waiting for that other thing.
done
done
My code runs the function once, after getting a INT signal from another script, but then never again. It halts.
EDIT: Although I accidentally put en exit at the end of the function, here on Stack Overflow, I didn't in the actual code I used. Either way, it made no difference. The solution is SIGTERM as described by Tiago.
I believe you're looking for SIGTERM:
Example:
#! /bin/bash
trap -- '' SIGINT SIGTERM
while true; do
date +%F_%T
sleep 1
done
Running this example cTRL+C won't kill it nor kill <pid> you can however kill it with kill -9 <pid>.
If you don't want CTRL+Z to interrupt use: trap -- '' SIGINT SIGTERM SIGTSTP
trap the signal, then either react to it appropriately, in the function associate with the trap, or ignore it by for example associate : as command to get executed when the signal occurs.
to trap signals, bash knows the trap command
Reset trap to former action by executing trap with signal name only.
Therefore you want to (i think that's what you say you want with "only temporarily be interrupted by a kill signal"):
trap the signal at the begin of your script: trap signal custom_action
just before you want the signal to allow interrupting your script, execute: trap signal
At the end of that phase, trap again by: signal custom_action
to specify signals, you can also use their respective signal numbers. A list of signal names is printed with the command:
trap -l
the default signal sent by kill is SIGTERM (15), unless you specify a different signal after the kill command
don't exit in your do_something function. Simply let the function return to the section in your code where it was interrupted when the signal occured.
The mentioned ":" command has another potential use in your script, if you feel thusly inclined:
while :
do
sleep 1
done
can be an alternative to "while true" - no backticks needed for that, btw.
You just want to ignore the exit status.
If you want your script to keep running and not exit, without worrying about handling traps.
(my_command) || true
The parentheses execute that command in a subshell. The true is for compatibility with set -e, if you use it. It simply overrides the status to always report a success.
See the source.
I found this question to be helpful:
How to run a command before a Bash script exits?
My sample file
traptest.sh:
#!/bin/bash
trap 'echo trapped' TERM
while :
do
sleep 1000
done
$ traptest.sh &
[1] 4280
$ kill %1 <-- kill by job number works
Terminated
trapped
$ traptest.sh &
[1] 4280
$ kill 4280 <-- kill by process id doesn't work?
(sound of crickets, process isn't killed)
If I remove the trap statement completely, kill process-id works again?
Running some RHEL 2.6.18-194.11.4.el5 at work. I am really confused by this behaviour, is it right?
kill [pid]
send the TERM signal exclusively to the specified PID.
kill %1
send the TERM signal to the job #1's entire process group, in this case to the script pid + his children (sleep).
I've verified that with strace on sleep process and on script process
Anyway, someone got a similar problem here (but with SIGINT instead of SIGTERM): http://www.vidarholen.net/contents/blog/?p=34.
Quoting the most important sentence:
kill -INT %1 sends the signal to the job’s process group, not the backgrounded pid!
This is expected behavior. Default signal sent by kill is SIGTERM, which you are catching by your trap. Consider this:
#!/bin/bash
# traptest.sh
trap "echo Booh!" SIGINT SIGTERM
echo "pid is $$"
while : # This is the same as "while true".
do
a=1
done
(sleep really creates a new process and the behavior is clearer with my example I guess).
So if you run traptest.sh in one terminal and kill TRAPTEST_PROCESS_ID from another terminal, output in the terminal running traptest will be Booh! as expected (and the process will NOT be killed). If you try sending kill -s HUP TRAPTEST_PROCESS_ID, it will kill the traptest process.
This should clear up the %1 confusion.
Note: the code example is taken from tldp
Davide Berra explained the difference between kill %<jobspec> and kill <PID>, but not how that difference results in what you observed. After all, Unix signal handlers should be called pretty much instantaneously, so why does sending a SIGTERM to the script alone not trigger its trap handler?
The bash man page explains why, in the last paragraph of the SIGNALS section:
If bash is waiting for a command to complete and receives a signal for
which a trap has been set, the trap will not be executed until the
command completes.
So, the signal was delivered immediately, but the handler execution was deferred until sleep exited.
Hence, with kill %<jobspec>:
Both the script and sleep received SIGTERM
bash registered the signal, noticed that a trap was set for it, and queued the handler for future execution
sleep exited immediately
bash noted sleep's exit, and ran the trap handler
whereas with kill <script_PID>:
Only the script received SIGTERM
bash registered the signal, noticed that a trap was set for it, and queued the handler for future execution
sleep exited after 1000 seconds
bash noted sleep's exit, and ran the trap handler
Obviously, you didn't want long enough to see that last bit. :)
If you're interested in the gory details, download the bash source code and look in trap.c, specifically the trap_handler() and run_pending_traps() functions.
I am unable to trap a signal when running in a child / background process.
Here is my simple bash script:
#!/bin/bash
echo "in child"
trap "got_signal" SIGINT
function got_signal {
echo "trapped"
exit 0
}
while [ true ]; do
sleep 2
done
When running this and later do
kill -SIGINT (pid)
everything works as expected, it prints trapped and exits.
Now, if I start the same script from a parent script like this:
#!/bin/bash
echo "starting the child"
./child.sh &
Then the child does not trap the signal anymore.... ?
After changing to use SIGTERM instead of SIGINT, it seems to be working correctly... ?
The bash manpage on OSX (but it should be the same in other versions) has this to say about signal handling:
Non-builtin commands run by bash have signal handlers set to the values
inherited by the shell from its parent. When job control is not in
effect, asynchronous commands ignore SIGINT and SIGQUIT in addition to
these inherited handlers.
and further on, under the trap command:
Signals ignored upon entry to the shell cannot
be trapped or reset.
Since scripts don't use job control by default, this means the case you're talking about.
Per your note:
Signals ignored upon entry to the shell cannot be trapped or reset.
I have noticed that ZSH does not ignore the signals sent back and forth between parent and child process, but bash does. Here's the question I posted myself:
Trapping CHLD signal - ZSH works but ksh/bash/sh don't?