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error running CAM4/CAM5 in E compset

I

ivanacv@nbi_ku_dk

New Member
Hi,

I was hoping somebody could help with the following problem. We have installed CESM1.0.4 on a new machine and certain compsets do not seem to run. F and some of the B compsets run fine, however none of the E ones do (with CAM4 or CAM5). Resolution is 1.9x2.5_1.9x2.5. Error messages look very much the same in different failed compset cases (E and B). Perhaps somebody else has encountered this before? I would be very grateful for any advice you may think of.
Our machine is a Linux cluster, 16 pes/node, PBS batch system and we use openmpi-1.6.2_intel13.

E1850_CAM5CN.o917:

CCSM BUILDNML SCRIPT STARTING
- Create modelio namelist input files
CCSM BUILDNML SCRIPT HAS FINISHED SUCCESSFULLY
-------------------------------------------------------------------------
CCSM PRESTAGE SCRIPT STARTING
- CCSM input data directory, DIN_LOC_ROOT_CSMDATA, is /data/ra/cesm-inputdata
- Case input data directory, DIN_LOC_ROOT, is /data/ra/cesm-inputdata
- Checking the existence of input datasets in DIN_LOC_ROOT
CCSM PRESTAGE SCRIPT HAS FINISHED SUCCESSFULLY
Fri Nov 9 15:39:19 PST 2012 -- CSM EXECUTION BEGINS HERE
Fri Nov 9 15:41:49 PST 2012 -- CSM EXECUTION HAS FINISHED
Model did not complete - see /data/ra/icv/E1850_CAM5CN/run/cpl.log.121109-153853

-----------------------------------------------------
cpl. log* says Model initialization complete
-----------------------------------------------------


ccsm.log.* :

...

Reading setup_nml
Reading grid_nml
Reading ice_nml
Reading tracer_nml
CalcWorkPerBlock: Total blocks: 128 Ice blocks: 128 IceFree blocks: 0 Land blocks: 0
MCT::m_Router::initp_: GSMap indices not increasing...Will correct
MCT::m_Router::initp_: RGSMap indices not increasing...Will correct
MCT::m_Router::initp_: RGSMap indices not increasing...Will correct
MCT::m_Router::initp_: GSMap indices not increasing...Will correct
(seq_frac_check) [lnd init] afrac min/max = 1.000000000000000000 1.000000000000000000
(seq_frac_check) [lnd init] lfrac min/max = 0.573489812125174137E-01 1.000000000000000000
(seq_frac_check) [lnd init] lfrin min/max = 0.573489812125174137E-01 1.000000000000000000
(seq_frac_check) [ice init] afrac min/max = 1.000000000000000000 1.000000000000000000
(seq_frac_check) [ice init] ofrac min/max = 0.00000000000000000 1.000000000000000000
(seq_frac_check) [ice init] ifrac min/max = 0.00000000000000000 0.0000000000000000

...

calcsize j,iq,jac, lsfrm,lstoo 2 3 2 13 19
calcsize j,iq,jac, lsfrm,lstoo 2 4 1 16 20
calcsize j,iq,jac, lsfrm,lstoo 2 4 2 16 20
forrtl: error (73): floating divide by zero
Image PC Routine Line Source
ccsm.exe 0000000002D57302 ice_dyn_evp_mp_st 1205 ice_dyn_evp.F90
ccsm.exe 0000000002D46247 ice_dyn_evp_mp_ev 380 ice_dyn_evp.F90
ccsm.exe 0000000002ECF0B3 ice_step_mod_mp_s 664 ice_step_mod.F90
ccsm.exe 0000000002D06EB4 ice_comp_mct_mp_i 554 ice_comp_mct.F90
ccsm.exe 00000000004E18CA ccsm_comp_mod_mp_ 1759 ccsm_comp_mod.F90
ccsm.exe 00000000004EB6AE MAIN__ 91 ccsm_driver.F90
ccsm.exe 00000000004CC20C Unknown Unknown Unknown
libc.so.6 000000347A61ECDD Unknown Unknown Unknown
ccsm.exe 00000000004CC109 Unknown Unknown Unknown
forrtl: error (65): floating invalid
Image PC Routine Line Source
ccsm.exe 0000000002D57302 ice_dyn_evp_mp_st 1205 ice_dyn_evp.F90
ccsm.exe 0000000002D46247 ice_dyn_evp_mp_ev 380 ice_dyn_evp.F90
ccsm.exe 0000000002ECF0B3 ice_step_mod_mp_s 664 ice_step_mod.F90
ccsm.exe 0000000002D06EB4 ice_comp_mct_mp_i 554 ice_comp_mct.F90
ccsm.exe 00000000004E18CA ccsm_comp_mod_mp_ 1759 ccsm_comp_mod.F90
ccsm.exe 00000000004EB6AE MAIN__ 91 ccsm_driver.F90
ccsm.exe 00000000004CC20C Unknown Unknown Unknown
libc.so.6 000000347A61ECDD Unknown Unknown Unknown
ccsm.exe 00000000004CC109 Unknown Unknown Unknown
...

forrtl: error (78): process killed (SIGTERM)
Image PC Routine Line Source
libpthread.so.0 00000032EE40C173 Unknown Unknown Unknown
libmlx4-rdmav2.so 00007F846EC7BA7B Unknown Unknown Unknown
mca_btl_openib.so 00007F84713904EF Unknown Unknown Unknown
libmpi.so.1 00007F84764AFC69 Unknown Unknown Unknown
libmpi.so.1 00007F84763E24F2 Unknown Unknown Unknown
libmpi.so.1 00007F8476409F04 Unknown Unknown Unknown
libmpi_f77.so.1 00007F8475F6EC45 Unknown Unknown Unknown
ccsm.exe 0000000003039D44 ice_boundary_mp_i 2747 ice_boundary.F90
ccsm.exe 0000000002D4719A ice_dyn_evp_mp_ev 434 ice_dyn_evp.F90
ccsm.exe 0000000002ECF0B3 ice_step_mod_mp_s 664 ice_step_mod.F90
ccsm.exe 0000000002D06EB4 ice_comp_mct_mp_i 554 ice_comp_mct.F90
ccsm.exe 00000000004E18CA ccsm_comp_mod_mp_ 1759 ccsm_comp_mod.F90
ccsm.exe 00000000004EB6AE MAIN__ 91 ccsm_driver.F90
ccsm.exe 00000000004CC20C Unknown Unknown Unknown
libc.so.6 00000032EDC1ECDD Unknown Unknown Unknown
ccsm.exe 00000000004CC109 Unknown Unknown Unknown
------------------------------------------
 
I

ivanacv@nbi_ku_dk

New Member
Could somebody please address my post?

user012 said:
Hi,

I was hoping somebody could help with the following problem. We have installed CESM1.0.4 on a new machine and certain compsets do not seem to run. F and some of the B compsets run fine, however none of the E ones do (with CAM4 or CAM5). Resolution is 1.9x2.5_1.9x2.5. Error messages look very much the same in different failed compset cases (E and B). Perhaps somebody else has encountered this before? I would be very grateful for any advice you may think of.
Our machine is a Linux cluster, 16 pes/node, PBS batch system and we use openmpi-1.6.2_intel13.

E1850_CAM5CN.o917:

CCSM BUILDNML SCRIPT STARTING
- Create modelio namelist input files
CCSM BUILDNML SCRIPT HAS FINISHED SUCCESSFULLY
-------------------------------------------------------------------------
CCSM PRESTAGE SCRIPT STARTING
- CCSM input data directory, DIN_LOC_ROOT_CSMDATA, is /data/ra/cesm-inputdata
- Case input data directory, DIN_LOC_ROOT, is /data/ra/cesm-inputdata
- Checking the existence of input datasets in DIN_LOC_ROOT
CCSM PRESTAGE SCRIPT HAS FINISHED SUCCESSFULLY
Fri Nov 9 15:39:19 PST 2012 -- CSM EXECUTION BEGINS HERE
Fri Nov 9 15:41:49 PST 2012 -- CSM EXECUTION HAS FINISHED
Model did not complete - see /data/ra/icv/E1850_CAM5CN/run/cpl.log.121109-153853

-----------------------------------------------------
cpl. log* says Model initialization complete
-----------------------------------------------------


ccsm.log.* :

...

Reading setup_nml
Reading grid_nml
Reading ice_nml
Reading tracer_nml
CalcWorkPerBlock: Total blocks: 128 Ice blocks: 128 IceFree blocks: 0 Land blocks: 0
MCT::m_Router::initp_: GSMap indices not increasing...Will correct
MCT::m_Router::initp_: RGSMap indices not increasing...Will correct
MCT::m_Router::initp_: RGSMap indices not increasing...Will correct
MCT::m_Router::initp_: GSMap indices not increasing...Will correct
(seq_frac_check) [lnd init] afrac min/max = 1.000000000000000000 1.000000000000000000
(seq_frac_check) [lnd init] lfrac min/max = 0.573489812125174137E-01 1.000000000000000000
(seq_frac_check) [lnd init] lfrin min/max = 0.573489812125174137E-01 1.000000000000000000
(seq_frac_check) [ice init] afrac min/max = 1.000000000000000000 1.000000000000000000
(seq_frac_check) [ice init] ofrac min/max = 0.00000000000000000 1.000000000000000000
(seq_frac_check) [ice init] ifrac min/max = 0.00000000000000000 0.0000000000000000

...

calcsize j,iq,jac, lsfrm,lstoo 2 3 2 13 19
calcsize j,iq,jac, lsfrm,lstoo 2 4 1 16 20
calcsize j,iq,jac, lsfrm,lstoo 2 4 2 16 20
forrtl: error (73): floating divide by zero
Image PC Routine Line Source
ccsm.exe 0000000002D57302 ice_dyn_evp_mp_st 1205 ice_dyn_evp.F90
ccsm.exe 0000000002D46247 ice_dyn_evp_mp_ev 380 ice_dyn_evp.F90
ccsm.exe 0000000002ECF0B3 ice_step_mod_mp_s 664 ice_step_mod.F90
ccsm.exe 0000000002D06EB4 ice_comp_mct_mp_i 554 ice_comp_mct.F90
ccsm.exe 00000000004E18CA ccsm_comp_mod_mp_ 1759 ccsm_comp_mod.F90
ccsm.exe 00000000004EB6AE MAIN__ 91 ccsm_driver.F90
ccsm.exe 00000000004CC20C Unknown Unknown Unknown
libc.so.6 000000347A61ECDD Unknown Unknown Unknown
ccsm.exe 00000000004CC109 Unknown Unknown Unknown
forrtl: error (65): floating invalid
Image PC Routine Line Source
ccsm.exe 0000000002D57302 ice_dyn_evp_mp_st 1205 ice_dyn_evp.F90
ccsm.exe 0000000002D46247 ice_dyn_evp_mp_ev 380 ice_dyn_evp.F90
ccsm.exe 0000000002ECF0B3 ice_step_mod_mp_s 664 ice_step_mod.F90
ccsm.exe 0000000002D06EB4 ice_comp_mct_mp_i 554 ice_comp_mct.F90
ccsm.exe 00000000004E18CA ccsm_comp_mod_mp_ 1759 ccsm_comp_mod.F90
ccsm.exe 00000000004EB6AE MAIN__ 91 ccsm_driver.F90
ccsm.exe 00000000004CC20C Unknown Unknown Unknown
libc.so.6 000000347A61ECDD Unknown Unknown Unknown
ccsm.exe 00000000004CC109 Unknown Unknown Unknown
...

forrtl: error (78): process killed (SIGTERM)
Image PC Routine Line Source
libpthread.so.0 00000032EE40C173 Unknown Unknown Unknown
libmlx4-rdmav2.so 00007F846EC7BA7B Unknown Unknown Unknown
mca_btl_openib.so 00007F84713904EF Unknown Unknown Unknown
libmpi.so.1 00007F84764AFC69 Unknown Unknown Unknown
libmpi.so.1 00007F84763E24F2 Unknown Unknown Unknown
libmpi.so.1 00007F8476409F04 Unknown Unknown Unknown
libmpi_f77.so.1 00007F8475F6EC45 Unknown Unknown Unknown
ccsm.exe 0000000003039D44 ice_boundary_mp_i 2747 ice_boundary.F90
ccsm.exe 0000000002D4719A ice_dyn_evp_mp_ev 434 ice_dyn_evp.F90
ccsm.exe 0000000002ECF0B3 ice_step_mod_mp_s 664 ice_step_mod.F90
ccsm.exe 0000000002D06EB4 ice_comp_mct_mp_i 554 ice_comp_mct.F90
ccsm.exe 00000000004E18CA ccsm_comp_mod_mp_ 1759 ccsm_comp_mod.F90
ccsm.exe 00000000004EB6AE MAIN__ 91 ccsm_driver.F90
ccsm.exe 00000000004CC20C Unknown Unknown Unknown
libc.so.6 00000032EDC1ECDD Unknown Unknown Unknown
ccsm.exe 00000000004CC109 Unknown Unknown Unknown
------------------------------------------
Click to expand...
 
hannay

hannay

Cecile Hannay
AMWG Liaison
Staff member
The error is:
error (73): floating divide by zero

It sounds like you are trying to run on the components on the atmospheric grid.

Try to run with ocean and ice on their grid: f09_g16 for instance.
 
I

ivanacv@nbi_ku_dk

New Member
Thank you very much. Yes, the resolution seems to be a part of the problem. Before seeing your response I tried 1.9x2.5_gx1v6 and this allowed to run the model for a month before encountering the problems again. I will try now the resolution you have suggested but I am worried that there may be more to it.
This is what I got with 1.9x2.5_gx1v6:

ccsmlog:

(seq_frac_check) [atm init] sum ncnt/maxerr = 0 0.00000000000000000
Opened file iv_E1850CNor.cam2.h1.0001-01-01-00000.nc to write 29
BalanceCheck: soil balance error nstep = 105 point = 2333 imbalance = -0.000002 W/m2
BalanceCheck: soil balance error nstep = 106 point = 2333 imbalance = -0.000002 W/m2
QNEG4 WARNING from TPHYSAC Max possible LH flx exceeded at 1 points. , Worst excess = -1.4062E-06, lchnk = 97, i = 5, same as indices lat = 4, lon = 61
.....


BalanceCheck: soil balance error nstep = 4998 point = 6537 imbalance = -0.000006 W/m2
mpiexec: killing job...

mpiexec: abort is already in progress...hit ctrl-c again to forcibly terminate

forrtl: error (78): process killed (SIGTERM)
Image PC Routine Line Source
libmlx4-rdmav2.so 00002B78AC98EAD5 Unknown Unknown Unknown
mca_btl_openib.so 00002B78AAC514EF Unknown Unknown Unknown
libmpi.so.1 00002B78A5B9DC69 Unknown Unknown Unknown
libmpi.so.1 00002B78A5AD04F2 Unknown Unknown Unknown
libmpi.so.1 00002B78A5AF7F04 Unknown Unknown Unknown
libmpi_f77.so.1 00002B78A6099C45 Unknown Unknown Unknown
ccsm.exe 00000000010F8B81 ice_boundary_mp_i 2747 ice_boundary.F90
ccsm.exe 0000000000FE2FB6 ice_dyn_evp_mp_ev 434 ice_dyn_evp.F90
ccsm.exe 000000000107AF5B ice_step_mod_mp_s 664 ice_step_mod.F90
ccsm.exe 0000000000FBF4E6 ice_comp_mct_mp_i 554 ice_comp_mct.F90
ccsm.exe 00000000004B9493 ccsm_comp_mod_mp_ 1759 ccsm_comp_mod.F90
ccsm.exe 00000000004CBD91 MAIN__ 91 ccsm_driver.F90
ccsm.exe 00000000004B7C0C Unknown Unknown Unknown
libc.so.6 0000003C8D41ECDD Unknown Unknown Unknown
ccsm.exe 00000000004B7B09 Unknown Unknown Unknown
 
D

devarajun@gmail_com

Dev
Member
Hello user012

I too went through similar problems. First i configure and build E1850CN with f19_f19, it was not running. Then I tried with f19_g16 and now its running. But again similar errors are showing up in ccsmlog(part of it is shown below). Also, the run is very slow.

I checked the ccsm_timing.$CASE.$datestamp which shows:

Overall Metrics:
Model Cost: 9440.31 pe-hrs/simulated_year (scale= 1.00)
Model Throughput: 0.15 simulated_years/day

I hope you have already solved the problem. Please help me out of this issue.

ccsmlog:

QNEG4 WARNING from TPHYSAC Max possible LH flx exceeded at 1 points. , Worst excess = -9.5149E-06, lchnk = 774, i = 13, same as indices lat = 84, lon = 30
QNEG4 WARNING from TPHYSAC Max possible LH flx exceeded at 1 points. , Worst excess = -1.2209E-06, lchnk = 775, i = 13, same as indices lat = 84, lon = 31
QNEG4 WARNING from TPHYSAC Max possible LH flx exceeded at 1 points. , Worst excess = -1.7625E-06, lchnk = 776, i = 13, same as indices lat = 84, lon = 32
QNEG4 WARNING from TPHYSAC Max possible LH flx exceeded at 1 points. , Worst excess = -3.5511E-07, lchnk = 810, i = 1, same as indices lat = 85, lon = 30
QNEG4 WARNING from TPHYSAC Max possible LH flx exceeded at 2 points. , Worst excess = -1.7197E-06, lchnk = 777, i = 9, same as indices lat = 83, lon = 33
QNEG4 WARNING from TPHYSAC Max possible LH flx exceeded at 1 points. , Worst excess = -5.7334E-06, lchnk = 811, i = 1, same as indices lat = 85, lon = 31
QNEG4 WARNING from TPHYSAC Max possible LH flx exceeded at 2 points. , Worst excess = -1.1129E-06, lchnk = 778, i = 13, same as indices lat = 84, lon = 34
QNEG4 WARNING from TPHYSAC Max possible LH flx exceeded at 1 points. , Worst excess = -2.0332E-06, lchnk = 812, i = 1, same as indices lat = 85, lon = 32
QNEG4 WARNING from TPHYSAC Max possible LH flx exceeded at 2 points. , Worst excess = -9.4973E-07, lchnk = 779, i = 9, same as indices lat = 83, lon = 35
QNEG4 WARNING from TPHYSAC Max possible LH flx exceeded at 2 points. , Worst excess = -2.5846E-06, lchnk = 813, i = 1, same as indices lat = 85, lon = 33
QNEG4 WARNING from TPHYSAC Max possible LH flx exceeded at 2 points. , Worst excess = -2.1007E-06, lchnk = 814, i = 1, same as indices lat = 85, lon = 34

...

QNEG3 from TPHYSBCb:m= 5 lat/lchnk= 529 Min. mixing ratio violated at 1 points. Reset to 0.0E+00 Worst =-4.7E-10 at i,k= 13 24
filew failed, worst i, j, qtmp, q = 1 61
-2.740070676559263E-015 0.000000000000000E+000
BalanceCheck: soil balance error nstep = 1231 point = 7919 imbalance = -0.000008 W/m2
BalanceCheck: soil balance error nstep = 1232 point = 7919 imbalance = -0.000008 W/m2
BalanceCheck: soil balance error nstep = 1251 point = 7429 imbalance = -0.000001 W/m2
BalanceCheck: soil balance error nstep = 1252 point = 7429 imbalance = -0.000001 W/m2
QNEG3 from vertical diffusion/SO2:m= 8 lat/lchnk= 805 Min. mixing ratio violated at 2 points. Reset to 1.0E-36 Worst =-1.0E-12 at i,k= 1 30
QNEG3 from convtran2/SOAG:m= 10 lat/lchnk= 399 Min. mixing ratio violated at 1 points. Reset to 1.0E-36 Worst =-8.2E-11 at i,k= 16 30
BalanceCheck: soil balance error nstep = 1395 point = 7428 imbalance = -0.000002 W/m2
BalanceCheck: soil balance error nstep = 1396 point = 7428 imbalance = -0.000002 W/m2
BalanceCheck: soil balance error nstep = 1403 point = 11680 imbalance = -0.000003 W/m2
BalanceCheck: soil balance error nstep = 1404 point = 11680 imbalance = -0.000003 W/m2
BalanceCheck: soil balance error nstep = 1405 point = 11680 imbalance = -0.000002 W/m2
BalanceCheck: soil balance error nstep = 1405 point = 8152 imbalance = 0.000000 W/m2
BalanceCheck: soil balance error nstep = 1406 point = 11680 imbalance = -0.000002 W/m2
BalanceCheck: soil balance error nstep = 1406 point = 8152 imbalance = 0.000000 W/m2
Opened file ./somcam5.clm2.h0.0001-01.nc to write 63
Opened file somcam5.cam2.h0.0001-01.nc to write 63
BalanceCheck: soil balance error nstep = 1499 point = 11677 imbalance = 0.000000 W/m2
BalanceCheck: soil balance error nstep = 1500 point = 11677 imbalance = 0.000000 W/m2
filew failed, worst i, j, qtmp, q = 1 35
-1.403648097160563E-015 0.000000000000000E+000
dpcoup cant adjust 3 313 9 -9.243279892192106E-019
0.000000000000000E+000 7.796021544792771E-019
filew failed, worst i, j, qtmp, q = 1 60
-1.726614084843839E-011 0.000000000000000E+000
filew failed, worst i, j, qtmp, q = 1 60
-1.207380182004439E-002 7.570681531833429E-009
QNEG3 from TPHYSBCb:m= 5 lat/lchnk= 529 Min. mixing ratio violated at 2 points. Reset to 0.0E+00 Worst =-1.6E-06 at i,k= 13 21
BalanceCheck: soil balance error nstep = 1691 point = 11684 imbalance = -0.000001 W/m2
BalanceCheck: soil balance error nstep = 1692 point = 11684 imbalance = -0.000001 W/m2
BalanceCheck: soil balance error nstep = 1737 point = 11684 imbalance = -0.000001 W/m2
BalanceCheck: soil balance error nstep = 1738 point = 11684 imbalance = -0.000001 W/m2
BalanceCheck: soil balance error nstep = 1739 point = 4869 imbalance = 0.000000 W/m2
BalanceCheck: soil balance error nstep = 1740 point = 4869 imbalance = 0.000000 W/m2
BalanceCheck: soil balance error nstep = 1783 point = 5736 imbalance = -0.000001 W/m2
BalanceCheck: soil balance error nstep = 1784 point = 5736 imbalance = -0.000001 W/m2
BalanceCheck: soil balance error nstep = 1791 point = 5736 imbalance = -0.000006 W/m2
BalanceCheck: soil balance error nstep = 1792 point = 5736 imbalance = -0.000006 W/m2
QNEG3 from vertical diffusion/SO2:m= 8 lat/lchnk= 142 Min. mixing ratio violated at 1 points. Reset to 1.0E-36 Worst =-2.0E-12 at i,k= 8 30
BalanceCheck: soil balance error nstep = 1859 point = 7922 imbalance = 0.000000 W/m2
BalanceCheck: soil balance error nstep = 1860 point = 7922 imbalance = 0.000000 W/m2
BalanceCheck: soil balance error nstep = 1929 point = 11676 imbalance = 0.000000 W/m2
BalanceCheck: soil balance error nstep = 1930 point = 11676 imbalance = 0.000000 W/m2
BalanceCheck: soil balance error nstep = 1933 point = 1008 imbalance = -0.000003 W/m2
BalanceCheck: soil balance error nstep = 1934 point = 1008 imbalance = -0.000003 W/m2
BalanceCheck: soil balance error nstep = 1935 point = 1008 imbalance = -0.000002 W/m2
BalanceCheck: soil balance error nstep = 1936 point = 1008 imbalance = -0.000002 W/m2
BalanceCheck: soil balance error nstep = 1981 point = 11684 imbalance = 0.000000 W/m2
BalanceCheck: soil balance error nstep = 1982 point = 11684 imbalance = 0.000000 W/m2
BalanceCheck: soil balance error nstep = 2025 point = 8152 imbalance = 0.000000 W/m2
BalanceCheck: soil balance error nstep = 2026 point = 8152 imbalance = 0.000000 W/m2
QNEG3 from vertical diffusion/SO2:m= 8 lat/lchnk= 798 Min. mixing ratio violated at 2 points. Reset to 1.0E-36 Worst =-1.3E-12 at i,k= 9 30
QNEG3 from vertical diffusion/SO2:m= 8 lat/lchnk= 800 Min. mixing ratio violated at 1 points. Reset to 1.0E-36 Worst =-1.0E-12 at i,k= 1 30
filew failed, worst i, j, qtmp, q = 1 40
-1.604692839382339E-016 0.000000000000000E+000
BalanceCheck: soil balance error nstep = 2217 point = 11675 imbalance = -0.000004 W/m2
BalanceCheck: soil balance error nstep = 2218 point = 11675 imbalance = -0.000004 W/m2

Thanks
Angshuman
 
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