如何为LSF作业数组各元素配置不同参数，避免单独提交作业？

Alright, let's sort out your LSF job array setup so you can handle unique parameter ranges per array element without submitting separate jobs. First, let's clear up a key misconception and then walk through the correct approach.

First: Correct the Misused -a Option #

Your current script includes -a 000-176:1 — but in LSF, the -a flag is for specifying job start times (e.g., -a 14:30 to run at 2:30 PM) or CPU affinity settings, not for passing parameter ranges. This is probably why your setup isn't behaving as expected, so you can safely remove that line.

Solution: Map Parameter Ranges to Job Array Indices #

Since each element in your job array (1-22) needs a distinct parameter range, the cleanest approach is to define these ranges directly in your script, then use the job index (%I/$LSB_JOBINDEX) to pull the correct range for each run.

Updated Script Example #

#!/bin/bash
#BSUB -P account
#BSUB -q queue
#BSUB -W 48:00
#BSUB -n 2
#BSUB -R rusage[mem=40000]
#BSUB -J jobname[1-22]
#BSUB -eo jobname.%I.err
#BSUB -oo jobname.%I.out

# Define a mapping of job array indices to your parameter ranges
# Add all 22 entries with their specific start/end values
declare -A param_ranges=(
    [1]="0-10"
    [2]="11-25"
    [3]="26-40"
    # ... continue filling in up to [22]="your-last-range"
)

# Get the current job array index from LSF's environment variable
current_job=$LSB_JOBINDEX

# Fetch the parameter range for this job
range=${param_ranges[$current_job]}

# Split the range into start and end values (adjust delimiter if needed)
start=$(echo "$range" | cut -d'-' -f1)
end=$(echo "$range" | cut -d'-' -f2)

# Replace this with your actual command using $start and $end
echo "Running job $current_job with parameter range $start to $end"
# your_command --start $start --end $end

How This Works #

• $LSB_JOBINDEX is an environment variable automatically set by LSF for each job array element, matching the %I value in your job name/output files.
• The param_ranges associative array lets you explicitly map each index (1-22) to its unique parameter range — perfect for non-uniform ranges.

Fixing the -i Option (If You Need Per-Job Input Files) #

If you were trying to use bsub -i to pass unique input files to each job array element, you need to tie the input filename to the job index. For example:

bsub -i input.%I < myscript.sh

This will use input.1 for job index 1, input.2 for index 2, etc. Make sure these files exist in your working directory (or use full paths) — if the files don't match the %I pattern, the -i option won't work as expected.

Submitting the Job #

Once your script is updated, submit it exactly as you were before:

bsub < myscript.sh

This will queue all 22 job array elements at once, each using its own parameter range.

内容的提问来源于stack exchange，提问作者joeblow