LoadLeveler Chain Jobs

Now all the blocks on BlueGene are dynamic blocks. If you want to run jobs one after the other, you should use the following tricks.

Suppose you want to run 3 minimization steps which are dependent. For step 2 and 3, dependency command should be used. See the example.

common
@ job_type = bluegene
@ job_name = min
@ class = normaldyn
@ initialdir = /gpfs/home2/yulinh/RCR/projects_BG/inactive_ERBB_lapatinib/inactive_HER2_temp1XKK_lapatinib/N003_mdwat_namd_run2
@ wall_clock_limit = 00:20:00
step 1
@ step_name = $(job_name)_01
@ executable = mpirun32
@ bg_size = 512
@ arguments = -np 512 -exe path/namd2 -cwd "path" -args "01mi.in"
@ input = /dev/null
@ output = mi.$(step_name).out
@ error = mi.err.$(step_name)
@ notification = complete
@ queue
step 2
@ step_name = $(job_name)_02
@ dependency = ($(job_name)_01 == 0)
@ bg_size = 512
@ arguments = -np 512 -exe path/namd2 -cwd "path" -args "02mi.in"
@ input = /dev/null
@ output = mi.$(step_name).out
@ error = mi.err.$(step_name)
@ notification = complete
@ queue
step 3
@ step_name = $(job_name)_03
@ dependency = ($(job_name)_02 == 0)
@ bg_size = 512
@ arguments = -np 512 -exe path/namd2 -cwd "path" -args "03mi.in"
@ input = /dev/null
@ output = mi.$(step_name).out
@ error = mi.err.$(step_name)
@ notification = complete
@ queue

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