Adding Job Array elements in Slurm after submission - bash

Question

I'm trying to use a Slurm-operated cluster to run LS-Dyna (a finite-element simulation program with a limited number of licenses available on my cluster). I am trying to write my batch scripts so that I do not waste processing time due to this license limit (as well as to improve legibility when running 'squeue' commands) by using job arrays -but I'm having trouble making that work.
I want to run identical Bash scripts in a variety of FEM meshes, each of which I have organized into different subfolders.
Given this folder structure on my cluster...
cluster root
|
...
|
|-+ my scratch space's root
|
|-+ this project
|
|--+ lat_-5mm
| |- runCurrentLine.bash
| |- other files
|
|--+ lat_-4.75mm
| |- runCurrentLine.bash
| |- other files
|
|--+ lat_-4.5mm
| |- runCurrentLine.bash
| |- other files
|
...
|
|--+ lat_5mm
| |- runCurrentLine.bash
| |- other files
|
|
|-sendDynaRuns.bash
|-other dependencies
...I'm trying to submit "runCurrentLine.bash" in each folder by running the following script in my login node.
#!/bin/bash
iter=0
for foldernow in */; do
# change to subdirectory for current line iteration
cd "./${foldernow}";
# make Slurm and user happy
echo "sending LS Dyna simulation for ${pos}mm line..."
sleep 1
# first line only: send batch, and get job ID
if [ "${iter}" == 0 ];then
# send the batch...
jobID=$(sbatch -J "Dyna" --array="${iter}"%15 runCurrentLine.bash)
# ...ensure that Slurm's output shows on console (which includes the job ID)...
echo "${jobID}"
# ...and extract the job ID and save as a variable
jobID=$(echo "${jobID}" | grep -Eo '[+-]?[0-9]+([.][0-9]+)?')
# subsequent lines: add current line to job array
else
scontrol update --jobid="${jobID}" --array="${iter}"%15 runCurrentLine.bash
fi
# prepare to move onto next position
iter=$((iter+1))
cd ../
done
This setup properly sends the batch job for the first line, at -0.25mm*. However, for the second line onwards, it doesn't seem to do the same thing... This is what I end up getting on my console:
*: I intended the "lat_xmm" folders to be numerically ordered, but Unix doesn't seem to recognize that
$ ./sendDynaRuns.bash
sending LS Dyna simulation for -0.25mm line...
Submitted batch job 1081040
sending LS Dyna simulation for 0.25mm line...
sbatch: error: Batch job submission failed: Invalid job id specified
sending LS Dyna simulation for -0.5mm line...
sbatch: error: Batch job submission failed: Invalid job id specified
I know that runCurrentLine.bash runs just fine if I manually send it as a batch (and it runs to completion within the time limit I specified in-file, mainly since it doesn't have to compete with other lines for open licenses). What should I do to be able to get my code to work?
Thank you in advance!

Answer 1

As state by #Poshi, you cannot add jobs to an existing array.
I would create a submission script like this one:
#!/bin/bash
#SBATCH --array=1-<nb of folders>%15
# ALL OTHER SLURM SBATCH DIRECTIVES HERE
folders=(lat_*)
foldernow=${folders[$SLURM_TASK_ARRAY_ID]}
cd $foldernow && ./runCurrentLine.bash
The only drawback is that you need setup explicitly the number of jobs the array based on the number of folders.