[Wrf-users] WRF/chem error with MEGAN bio-emissions and RACM_VBS mechanism
Chris Tessum
tess0050 at umn.edu
Fri Feb 8 09:02:58 MST 2013
Hello,
I am trying to run WRF/chem v3.4 with the RACM_VBS chemical mechanism and
MEGAN biogenic emissions. Everything works fine in the beginning, but after
one hour of simulation time the program crashes when it tries to write out
the results, giving this error when I set the debug level to 1000:
d03 2004-12-27_01:00:00 module_io.F (md_calls.m4) : in
wrf_put_dom_ti_integer_s
ca
output_wrf.b writing 2d real sebio_oli
date 2004-12-27_01:00:00
ds 903596857 903539941 904037630
de 903966924 903372531 903691536
ps 904183828 904434164 903202198
pe 903706240 903644900 903560598
ms 903548162 -4 903853002
me 903802871 903809105 903731388
d03 2004-12-27_01:00:00 module_io.F: in wrf_write_field
wrf.exe: Rank 0:1: MPI_Gatherv: Internal MPI error
If I set bio_emiss_opt=1 (switching from the MEGAN bio-emissions to the
simple bio-emissions), the problem goes away. If I change chem_opt to 2
(the default RADM2 mechanism), that also causes the problem to go away.
Does anyone have any ideas about what could be causing this problem or how
to fix it? I have included the namelist below:
&time_control
run_days = 1,
run_hours = 0,
run_minutes = 0,
run_seconds = 0,
start_year = 2004, 2004, 2004,
start_month = 12, 12, 12,
start_day = 27, 27, 27,
start_hour = 00, 00, 00,
start_minute = 00, 00, 00,
start_second = 00, 00, 00,
end_year = 2005, 2005, 2005,
end_month = 02, 02, 02,
end_day = 16, 16, 16,
end_hour = 00, 00, 00,
end_minute = 00, 00, 00,
end_second = 00, 00, 00,
interval_seconds = 21600,
input_from_file = .true., .true., .true.,
history_interval_h = 24, 24, 24,
auxhist1_interval = 60, 60, 60,
frames_per_outfile = 1, 1, 1,
frames_per_auxhist1 = 24, 24, 24,
restart = .false.,
restart_interval_h = 24,
io_form_history = 2,
io_form_auxhist1 = 2,
io_form_restart = 2,
io_form_input = 2,
io_form_boundary = 11,
io_form_auxinput5 = 0,
io_form_auxinput6 = 0,
io_form_auxinput7 = 11,
io_form_auxinput12 = 0,
frames_per_auxinput5 = 24, 24, 24,
auxinput5_interval_m = 60, 60, 60,
frames_per_auxinput7 = 1, 1, 1,
auxinput7_interval_m = 60, 60, 60,
auxinput7_inname = wrffirechemi_d<domain>_<date>,
auxinput12_inname = wrf_chem_input_d<domain>,
nocolons = .true.,
debug_level = 10001,
/
&domains
time_step = 225,
use_adaptive_time_step = .false.,
time_step_fract_num = 0,
time_step_fract_den = 1,
max_dom = 3,
e_we = 149, 55, 73,
e_sn = 113, 55, 91,
e_vert = 28, 28, 28,
p_top_requested = 5000,
num_metgrid_levels = 27,
num_metgrid_soil_levels = 4,
dx = 36000, 12000, 2000,
dy = 36000, 12000, 2000,
grid_id = 1, 2, 3,
parent_id = 1, 1, 2,
i_parent_start = 1, 77, 21,
j_parent_start = 1, 65, 19,
parent_grid_ratio = 1, 3, 6,
parent_time_step_ratio = 1, 3, 6,
feedback = 1,
smooth_option = 0,
/
&physics
mp_physics = 3, 3, 3,
ra_lw_physics = 3, 3, 3,
ra_sw_physics = 3, 3, 3,
radt = 36, 12, 2,
sf_sfclay_physics = 1, 1, 1,
sf_surface_physics = 2, 2, 2,
bl_pbl_physics = 1, 1, 1,
bldt = 0, 0, 0,
cu_physics = 5, 5, 5,
cu_rad_feedback = .true., .true., .true.,
cudt = 0, 0, 0,
cu_diag = 1, 1, 1,
isfflx = 1,
ifsnow = 1,
icloud = 1,
surface_input_source = 1,
num_soil_layers = 4,
sf_urban_physics = 0, 0, 0,
/
&fdda
grid_fdda = 1, 1, 1,
gfdda_inname = wrffdda_d<domain>,
gfdda_interval_m = 360, 360, 360,
gfdda_end_h = 8760, 8760, 8760,
io_form_gfdda = 11,
/
&dynamics
w_damping = 1,
diff_opt = 1,
km_opt = 4,
diff_6th_opt = 0, 0, 0,
diff_6th_factor = 0.12, 0.12, 0.12,
base_temp = 290.0,
damp_opt = 0,
zdamp = 5000.0, 5000.0, 5000.0,
dampcoef = 0.2, 0.2, 0.2,
khdif = 0, 0, 0,
kvdif = 0, 0, 0,
non_hydrostatic = .true., .true., .true.,
chem_adv_opt = 2, 2, 2,
moist_adv_opt = 2, 2, 2,
scalar_adv_opt = 2, 2, 2,
tke_adv_opt = 2, 2, 2,
/
&bdy_control
spec_bdy_width = 5,
spec_zone = 1,
relax_zone = 4,
specified = .true., .false., .false.,
nested = .false., .true., .true.,
/
&grib2
/
&namelist_quilt
nio_tasks_per_group = 0,
nio_groups = 1,
/
&chem
kemit = 23,
chem_opt = 108, 108, 108,
bioemdt = 30, 30, 30,
photdt = 30, 30, 30,
chemdt = 7.5, 2.5, 0.83,
emiss_inpt_opt = 1, 1, 1,
emiss_opt = 3, 3, 3,
io_style_emissions = 2,
chem_in_opt = 0, 0, 0,
phot_opt = 2, 2, 2,
gas_drydep_opt = 1, 1, 1,
aer_drydep_opt = 1, 1, 1,
bio_emiss_opt = 3, 3, 3,
dust_opt = 0,
dmsemis_opt = 0,
seas_opt = 0,
gas_bc_opt = 1, 1, 1,
gas_ic_opt = 1, 1, 1,
aer_bc_opt = 1, 1, 1,
aer_ic_opt = 1, 1, 1,
gaschem_onoff = 1, 1, 1,
aerchem_onoff = 1, 1, 1,
wetscav_onoff = 0, 0, 0,
cldchem_onoff = 0, 0, 0,
vertmix_onoff = 1, 1, 1,
chem_conv_tr = 1, 1, 1,
biomass_burn_opt = 1, 1, 1,
plumerisefire_frq = 30, 30, 30,
have_bcs_chem = .true., .true., .true.,
aer_ra_feedback = 0, 0, 0,
/
Thank you for your time,
--
Chris Tessum
Doctoral Candidate
Environmental Engineering
University of Minnesota
+1 (612) 568 2238
tess0050 at umn.edu
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