Debugging Jobs

Flux supports parallel debuggers such as Rogue Wave Software (RWS)’s TotalView parallel debugger.

Parallel Debugging using TotalView

Debugging your MPI job from the beginning of parallel program execution:

$ totalview --args flux mini run -N 2 -n 2 ./mpi-program

Attaching to an already running job:

$ flux job attach --debug <JOBID> &
$ PID=$!
$ totalview -pid ${PID} /proc/${PID}/exe

You can also just type totalview without -pid option and then use its Start a Debugging Session GUI option to select the process of this flux-job command: A running program (attach).

Note

You use TotalView with the newly invoked flux job attach when your job has been launched via flux mini run (or flux mini submit). This is because Flux currently does not allow TotalView to attach to your running code if you just attach it to the flux mini run process that controls your code. For performance reasons, flux mini run does not generate sufficient debug information when it is invoked with no tool control.

Flux provides MPIR_partial_attach_ok [1] so you can attach TotalView to a subset of parallel processes as well, which can be handy when you debug a large-scale job. Please refer to TotalView user guide on its subset-attach capability.

Better Handling of Flux’s Internal Exec Events

Flux executes a series of subcommands before launching your parallel program. Thus, a side effect of the above commands is that TotalView will stop Flux’s own program execution each time a new subcommand is exec(3)’ed (e.g., when flux exec’s flux-mini) before your parallel program processes are spawned. This means you must manually click “Yes” whenever a stop-at-exec dialogue window is popped up. You do not need to stop it unless you are a Flux developer! Instead, you can make TotalView automatically continue on these events by building the the following exec-handling Tcl code into TotalView:

catch {dset TV::exec_handling { {^(flux|lrun|srun|jsrun)(<python[^>]*>(<flux-job>)?|<bash>|<jsrun>|<jswrap>)*$ go}} }

This code should either be added to the site-wide .tvdrc file to enable this for all TotalView sessions or per-user file (e.g., tvdrc in the current working directory) to enable this only for the user’s own sessions. For the latter case, you should provide -s tvdrc option to totalview. For example,

$ totalview -s tvdrc --args flux mini run -N 2 -n 2 ./mpi-program

Notice that it is designed to support not only Flux but also SLURM’s srun and IBM JSM’s jsrun commands. The regex syntax of exec_handling within TotalView can be found in TotalView user guide.

Known Issues

Parallel debugging support within Flux is new and we are working with tool builders to mature our functionality further. This section documents some of known limitations.

1. Depending on how the site configured TotalView, the parallel program may not stop at the first instruction to allow TotalView to debug them from the beginning of execution. For performance reasons, TotalView can be configured not to stop and process dynamic libraries and this can cause this issue. RWS is actively looking at this issue.