Difference between revisions of "GEOS-Chem v10-01 benchmark history"

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=== v10-01c ===
 
=== v10-01c ===
  
−
Here is the assessment form for 1-month benchmark simulation '''v10-01c'''.
+
==== 1-month benchmark with UCX chemistry ====
 +
 
 +
Here is the assessment form for 1-month benchmark simulation '''v10-01c with UCX chemistry'''.
  
 
{| border=1 cellspacing=0 cellpadding=5
 
{| border=1 cellspacing=0 cellpadding=5
Line 32: Line 34:
 
|
 
|
 
*''UCX:'' Sebastian Eastham (MIT)
 
*''UCX:'' Sebastian Eastham (MIT)
−
*''Fast-JX:'' Jingqiu Mao (Princeton)
+
*''Fast-JX:'' Sebastian Eastham (MIT), Jingqiu Mao (Princeton)
 
*''TOMS O3 fix:'' Jintai Lin (Peking U.)
 
*''TOMS O3 fix:'' Jintai Lin (Peking U.)
 
*''TAU profiler:'' John Linford (ParaTools,Inc), [[GEOS-Chem Support Team]]
 
*''TAU profiler:'' John Linford (ParaTools,Inc), [[GEOS-Chem Support Team]]
Line 74: Line 76:
 
|-
 
|-
 
|At the SURFACE, list all species that changed by 10% or more:
 
|At the SURFACE, list all species that changed by 10% or more:
−
|NO, PAN, ALK4, ISOP, HNO3, H3O3, ACET, MEK, ALD2, RCHO, MVK, MACR, PMN, PPN, PRPE, CH2O, N2O5, HNO4, MP, DMS, SO2, SO4s, NH3, NH4, NIT, NITs, DST4, Br2, Br, BrO, HOBr, HBr, BrNO2, BrNO3, MPN, ISOPN, MOBA, PROPNN, HAC, GLYC, MMN, RIP, IEPOX, MAP, NO2, NO3, HNO2, OH, HO2
+
|NO, PAN, ALK4, ISOP, HNO3, H2O2, ACET, MEK, ALD2, RCHO, MVK, MACR, PMN, PPN, PRPE, CH2O, N2O5, HNO4, MP, DMS, SO2, SO4s, NH3, NH4, NIT, NITs, DST4, Br2, Br, BrO, HOBr, HBr, BrNO2, BrNO3, MPN, ISOPN, MOBA, PROPNN, HAC, GLYC, MMN, RIP, IEPOX, MAP, NO2, NO3, HNO2, OH, HO2
 
|-
 
|-
 
|Comments on SURFACE differences:
 
|Comments on SURFACE differences:
Line 81: Line 83:
 
|-
 
|-
 
|At 500 hPa, list all species that changed by 10% or more:
 
|At 500 hPa, list all species that changed by 10% or more:
−
|NO, PAN, ALK4, ISOP, HNO3, H3O3, ACET, MEK, RCHO, MVK, MACR, PMN, R4N2, PRPE, CH2O, N2O5, HNO4, MP, DMS, SO2, NH3, NIT, NITs, DST4, Br2, Br, BrO, HOBr, HBr, BrNO2, BrNO3, MPN, ISOPN, MOBA, PROPNN, HAC, GLYC, MMN, RIP, IEPOX, MAP, NO2, NO3, HNO2, OH, HO2
+
|NO, PAN, ALK4, ISOP, HNO3, H2O2, ACET, MEK, RCHO, MVK, MACR, PMN, R4N2, PRPE, CH2O, N2O5, HNO4, MP, DMS, SO2, NH3, NIT, NITs, DST4, Br2, Br, BrO, HOBr, HBr, BrNO2, BrNO3, MPN, ISOPN, MOBA, PROPNN, HAC, GLYC, MMN, RIP, IEPOX, MAP, NO2, NO3, HNO2, OH, HO2
 
|-
 
|-
 
|Comments on 500 hPa differences:
 
|Comments on 500 hPa differences:
Line 117: Line 119:
 
|}
 
|}
  
−
--[[User:Melissa Payer|Melissa Sulprizio]] 12:36, 24 April 2014 (EDT)
+
--[[User:Melissa Payer|Melissa Sulprizio]] 11:02, 25 April 2014 (EDT)
 +
 
 +
==== 1-month benchmark with tropospheric chemistry ====
 +
 
 +
Here is the assessment form for 1-month benchmark simulation '''v10-01c with tropospheric chemistry''' (i.e. UCX off).
 +
 
 +
{| border=1 cellspacing=0 cellpadding=5
 +
|-bgcolor="#cccccc"
 +
!width="325px"|Description
 +
!
 +
|-
 +
|New features added into GEOS-Chem:
 +
|
 +
*[[Development of Fast-JX in GEOS-Chem|Fast-JX photolysis mechanism]]
 +
*[[Photolysis_mechanism#Bug_fix_for_determining_when_to_use_TOMS_O3_columns|Bug fix for determining when to use TOMS O3 columns]]
 +
*[[GEOS-Chem Newsletter Summer-Fall 2013#TAU and KPPA|Add support for TAU performance profiler]]
 +
*[[GEOS-Chem v9-02#Timeseries diagnostics need to be updated to allow for more transported tracers|Fixes for timeseries diagnostics to allow for more transported tracers]]
 +
*[[GEOS-Chem v10-01#Fixes for the stratospheric chemistry module|Fixes for the stratospheric chemistry module]]
 +
*[[GEOS-Chem_v10-01#Various updates for GEOS-Chem specialty_simulations|Various updates for GEOS-Chem specialty simulations]]
 +
*[[GEOS-Chem v10-01#Updates to speed up GEOS-Chem execution|Updates to speed up GEOS-Chem execution]]
 +
|-
 +
|Developer name(s) and institution(s):
 +
|
 +
*''Fast-JX:'' Sebastian Eastham (MIT), Jingqiu Mao (Princeton)
 +
*''TOMS O3 fix:'' Jintai Lin (Peking U.)
 +
*''TAU profiler:'' John Linford (ParaTools,Inc), [[GEOS-Chem Support Team]]
 +
*''Timeseries diagnostic fixes:'' [[GEOS-Chem Support Team]]
 +
*''Strat chem module fixes'': [[GEOS-Chem Support Team]]
 +
*''Specialty simualton fixes'': Jeffrey Pierce (CSU), Kevin Wecht (Harvard), Matthew Johnson (NASA), [[GEOS-Chem Support Team]]
 +
*''Speed-up of GEOS-Chem:'': [[GEOS-Chem Support Team]]
 +
|-
 +
|Version, resolution, met fields used:
 +
|v10-01, GEOS-FP (47L), 4x5, July 2013
 +
|-
 +
|1-month benchmark finished on:
 +
|Wed Apr 9 01:31:05 EDT 2014
 +
|-
 +
|Performance statistics:
 +
|
 +
*Ran on 8 CPUs of bench@titan-08.as.harvard.edu (2.659 GHz x 8 CPU)
 +
*Wall time: 2:55
 +
*Scalability: 6.7693
 +
|-
 +
|Compared to previous benchmark:
 +
|[[#v10-01b|v10-01b]]
 +
|-
 +
|This update will impact:<br>(select all that apply with '''boldface''')
 +
|Advection, BL Mixing, Convection, Met Fields, Dry Dep, Wet Dep, Stratosphere, Anthro Emiss, Biogenic Emiss, Biomass Emiss, '''Photolysis''', Chemistry, Other (please specify):
 +
|-
 +
|Plots may be viewed at:
 +
|<tt>ftp://ftp.as.harvard.edu/pub/exchange/mpayer/1mo_quick_look/v10-01c_trop/</tt>
 +
|-bgcolor="#cccccc"
 +
!Metrics
 +
!
 +
|-
 +
|Global mean OH (from log file):
 +
|14.0309540046685 x 10<sup>5</sup> molec/cm<sup>3</sup>
 +
|-
 +
|Methyl chloroform lifetime:
 +
|4.5937 years
 +
|-
 +
|Did either of these change by more than 5%?
 +
|No. The mean OH differs by 2.16%, and the MCF lifetimes differ by -1.65%.
 +
|-
 +
|At the SURFACE, list all species that changed by 10% or more:
 +
|NO, O3, PAN, ALK4, ISOP, HNO3, H2O2, ACET, MEK, ALD2, RCHO, MVK, MACR, PMN, PPN, R4N2, PRPE, C3H8, CH2O, N2O5, HNO4, MP, DMS, SO2, SO4, SO4s, MSA, NH3, NH4, NIT, NITs, DST4, Br2, Br, BrO, HOBr, HBr, BrNO2, BrNO3, MPN, ISOPN, MOBA, PROPNN, HAC, GLYC, MMN, RIP, IEPOX, MAP, NO2, NO3, HNO2, OH, HO2
 +
|-
 +
|Comments on SURFACE differences:
 +
|
 +
*TBD
 +
|-
 +
|At 500 hPa, list all species that changed by 10% or more:
 +
|NO, PAN, ALK4, ISOP, HNO3, H2O2, ACET, MEK, RCHO, MVK, MACR, PMN, R4N2, PRPE, C2H8, CH2O, N2O5, HNO4, MP, DMS, SO2, SO4s, NH3, MSA, NH3, NIT, NITs, DST4, Br2, Br, BrO, HOBr, HBr, BrNO2, BrNO3, MPN, ISOPN, MOBA, PROPNN, HAC, GLYC, MMN, RIP, IEPOX, MAP, NO2, NO3, HNO2, OH, HO2
 +
|-
 +
|Comments on 500 hPa differences:
 +
|
 +
*TBD
 +
|-
 +
|In the ZONAL MEAN differences, list all species that changed by 10% or more:
 +
|NO, O3, PAN, ALK4, ISOP, HNO3, H2O2, ACET, MEK, ALD2, RCHO, MVK, MACR, PMN, PPN, R4N2, PRPE, C3H8, CH2O, N2O5, HNO4, MP, DMS, SO2, SO4, SO4s, MSA, NH3, NIT, NITs, Br2, Br, BrO, HOBr, HBr, BrNO2, BrNO3, MPN, ISOPN, MOBA, PROPNN, HAC, GLYC, MMN, RIP, IEPOX, MAP, NO2, NO3, HNO2, OH, HO2
 +
 
 +
|-
 +
|Comments on ZONAL MEAN differences:
 +
|
 +
*TBD
 +
|-
 +
|In the EMISSION RATIO maps, list all species that changed by 10% or more:
 +
|ACET (ocean sink)
 +
|-
 +
|Comments on EMISSION RATIO differences:
 +
|
 +
*TBD
 +
|-
 +
|Additional or summary comments:
 +
|TBD
 +
|-bgcolor="#cccccc"
 +
!Approval
 +
!
 +
|-
 +
|Requires further investigation:
 +
|TBD
 +
|-
 +
|Approved by:
 +
|TBD
 +
|-
 +
|Date of approval:
 +
|TBD
 +
|}
 +
 
 +
--[[User:Melissa Payer|Melissa Sulprizio]] 11:02, 25 April 2014 (EDT)
  
 
=== v10-01b ===
 
=== v10-01b ===

Revision as of 15:02, 25 April 2014

On this page we have posted complete information about all benchmark simulations (both 1-month and 1-year) for GEOS-Chem v10-01.

1-yr benchmarks

TBD

1-month benchmarks

v10-01c

1-month benchmark with UCX chemistry

Here is the assessment form for 1-month benchmark simulation v10-01c with UCX chemistry.

Description
New features added into GEOS-Chem:
Developer name(s) and institution(s):
Version, resolution, met fields used: v10-01, GEOS-FP (72L), 4x5, July 2013
1-month benchmark finished on: Wed Apr 23 23:40:08 EDT 2014
Performance statistics:
  • Ran on 8 CPUs of bench@titan-08.as.harvard.edu (2.659 GHz x 8 CPU)
  • Wall time: 5:57
  • Scalability: 6.7431
Compared to previous benchmark: v10-01b
This update will impact:
(select all that apply with boldface) 		Advection, BL Mixing, Convection, Met Fields, Dry Dep, Wet Dep, Stratosphere, Anthro Emiss, Biogenic Emiss, Biomass Emiss, Photolysis, Chemistry, Other (please specify):
Plots may be viewed at: ftp://ftp.as.harvard.edu/pub/exchange/mpayer/1mo_quick_look/v10-01c/
Metrics
Global mean OH (from log file): 13.1222939674372 x 105 molec/cm3
Methyl chloroform lifetime: 4.7411 years
Did either of these change by more than 5%? No. The mean OH differs by -4.45%, and the MCF lifetimes differ by 1.51%.
At the SURFACE, list all species that changed by 10% or more: NO, PAN, ALK4, ISOP, HNO3, H2O2, ACET, MEK, ALD2, RCHO, MVK, MACR, PMN, PPN, PRPE, CH2O, N2O5, HNO4, MP, DMS, SO2, SO4s, NH3, NH4, NIT, NITs, DST4, Br2, Br, BrO, HOBr, HBr, BrNO2, BrNO3, MPN, ISOPN, MOBA, PROPNN, HAC, GLYC, MMN, RIP, IEPOX, MAP, NO2, NO3, HNO2, OH, HO2
Comments on SURFACE differences:
  • TBD
At 500 hPa, list all species that changed by 10% or more: NO, PAN, ALK4, ISOP, HNO3, H2O2, ACET, MEK, RCHO, MVK, MACR, PMN, R4N2, PRPE, CH2O, N2O5, HNO4, MP, DMS, SO2, NH3, NIT, NITs, DST4, Br2, Br, BrO, HOBr, HBr, BrNO2, BrNO3, MPN, ISOPN, MOBA, PROPNN, HAC, GLYC, MMN, RIP, IEPOX, MAP, NO2, NO3, HNO2, OH, HO2
Comments on 500 hPa differences:
  • TBD
In the ZONAL MEAN differences, list all species that changed by 10% or more: All species, except for MSA, NH4, OCPI, and DST4, changed by 10% or more.
Comments on ZONAL MEAN differences:
  • TBD
In the EMISSION RATIO maps, list all species that changed by 10% or more: ACET (ocean sink)
Comments on EMISSION RATIO differences:
  • TBD
Additional or summary comments: TBD
Approval
Requires further investigation: TBD
Approved by: TBD
Date of approval: TBD

--Melissa Sulprizio 11:02, 25 April 2014 (EDT)

1-month benchmark with tropospheric chemistry

Here is the assessment form for 1-month benchmark simulation v10-01c with tropospheric chemistry (i.e. UCX off).

Description
New features added into GEOS-Chem:
Developer name(s) and institution(s):
Version, resolution, met fields used: v10-01, GEOS-FP (47L), 4x5, July 2013
1-month benchmark finished on: Wed Apr 9 01:31:05 EDT 2014
Performance statistics:
  • Ran on 8 CPUs of bench@titan-08.as.harvard.edu (2.659 GHz x 8 CPU)
  • Wall time: 2:55
  • Scalability: 6.7693
Compared to previous benchmark: v10-01b
This update will impact:
(select all that apply with boldface) 		Advection, BL Mixing, Convection, Met Fields, Dry Dep, Wet Dep, Stratosphere, Anthro Emiss, Biogenic Emiss, Biomass Emiss, Photolysis, Chemistry, Other (please specify):
Plots may be viewed at: ftp://ftp.as.harvard.edu/pub/exchange/mpayer/1mo_quick_look/v10-01c_trop/
Metrics
Global mean OH (from log file): 14.0309540046685 x 105 molec/cm3
Methyl chloroform lifetime: 4.5937 years
Did either of these change by more than 5%? No. The mean OH differs by 2.16%, and the MCF lifetimes differ by -1.65%.
At the SURFACE, list all species that changed by 10% or more: NO, O3, PAN, ALK4, ISOP, HNO3, H2O2, ACET, MEK, ALD2, RCHO, MVK, MACR, PMN, PPN, R4N2, PRPE, C3H8, CH2O, N2O5, HNO4, MP, DMS, SO2, SO4, SO4s, MSA, NH3, NH4, NIT, NITs, DST4, Br2, Br, BrO, HOBr, HBr, BrNO2, BrNO3, MPN, ISOPN, MOBA, PROPNN, HAC, GLYC, MMN, RIP, IEPOX, MAP, NO2, NO3, HNO2, OH, HO2
Comments on SURFACE differences:
  • TBD
At 500 hPa, list all species that changed by 10% or more: NO, PAN, ALK4, ISOP, HNO3, H2O2, ACET, MEK, RCHO, MVK, MACR, PMN, R4N2, PRPE, C2H8, CH2O, N2O5, HNO4, MP, DMS, SO2, SO4s, NH3, MSA, NH3, NIT, NITs, DST4, Br2, Br, BrO, HOBr, HBr, BrNO2, BrNO3, MPN, ISOPN, MOBA, PROPNN, HAC, GLYC, MMN, RIP, IEPOX, MAP, NO2, NO3, HNO2, OH, HO2
Comments on 500 hPa differences:
  • TBD
In the ZONAL MEAN differences, list all species that changed by 10% or more: NO, O3, PAN, ALK4, ISOP, HNO3, H2O2, ACET, MEK, ALD2, RCHO, MVK, MACR, PMN, PPN, R4N2, PRPE, C3H8, CH2O, N2O5, HNO4, MP, DMS, SO2, SO4, SO4s, MSA, NH3, NIT, NITs, Br2, Br, BrO, HOBr, HBr, BrNO2, BrNO3, MPN, ISOPN, MOBA, PROPNN, HAC, GLYC, MMN, RIP, IEPOX, MAP, NO2, NO3, HNO2, OH, HO2
Comments on ZONAL MEAN differences:
  • TBD
In the EMISSION RATIO maps, list all species that changed by 10% or more: ACET (ocean sink)
Comments on EMISSION RATIO differences:
  • TBD
Additional or summary comments: TBD
Approval
Requires further investigation: TBD
Approved by: TBD
Date of approval: TBD

--Melissa Sulprizio 11:02, 25 April 2014 (EDT)

v10-01b

Here is the assessment form for 1-month benchmark simulation v10-01b.

Description
New features added into GEOS-Chem:
Developer name(s) and institution(s):
  • PROPNN molecular weight: Jenny Fisher (U. Wollongong)
  • TOMS O3 regridding: Jintai Lin (Peking U.)
Version, resolution, met fields used: v10-01, GEOS-FP (47L), 4x5, July 2013
1-month benchmark finished on: Wed Mar 5 15:06:00 EST 2014
Performance statistics:
  • Ran on 8 CPUs of bench@titan-11.as.harvard.edu (2.659 GHz x 8 CPU)
  • Wall time: 2:55
  • Scalability: 6.7949
Compared to previous benchmark: v10-01a
This update will impact:
(select all that apply with boldface) 		Advection, BL Mixing, Convection, Met Fields, Dry Dep, Wet Dep, Stratosphere, Anthro Emiss, Biogenic Emiss, Biomass Emiss, Photolysis, Chemistry, Other (please specify):
Plots may be viewed at: ftp://ftp.as.harvard.edu/pub/exchange/mpayer/1mo_quick_look/v10-01b/
Metrics
Global mean OH (from log file): 13.7339945052522 x 105 molec/cm3
Methyl chloroform lifetime: 4.6706 years
Did either of these change by more than 5%? No. Both the mean OH and MCF lifetimes differ by < 0.01%.
At the SURFACE, list all species that changed by 10% or more: NO, ISOP, MVK, MACR, PMN, NIT, DST4, ISOPN, MOBA, RIP
Comments on SURFACE differences:
  • Differences in most species are due to small number differences over the oceans or poles, where concentrations are small.
  • Differences in NIT can be attributed to numerical noise from ISORROPIA.
At 500 hPa, list all species that changed by 10% or more: NO, ISOP, NH3, NIT, DST4, ISOPN, MOBA, RIP
Comments on 500 hPa differences:
  • Differences in most species are due to small number differences over the oceans or poles, where concentrations are small.
  • Differences in NIT can be attributed to numerical noise from ISORROPIA.
In the ZONAL MEAN differences, list all species that changed by 10% or more: ALK4, ISOP, C3H8, SO4s, NH3, NIT, GLYC,
Comments on ZONAL MEAN differences:
  • Differences in most species are due to small number differences above ~200 hPa, where concentrations are small.
  • Differences in NIT can be attributed to numerical noise from ISORROPIA.
In the EMISSION RATIO maps, list all species that changed by 10% or more: None
Comments on EMISSION RATIO differences:
Additional or summary comments:
  • Differences caused by the TOMS O3 update are not seen in the benchmark output. The benchmark simulation uses O3 columns from the GEOS-FP met fields, so TOMS O3 columns are not used.
Approval
Requires further investigation: No
Approved by: Jenny Fisher, Fabien Paulot
Date of approval: 06 Mar 2014

--Melissa Sulprizio 11:34, 6 March 2014 (EST)

v10-01a

Here is the assessment form for 1-month benchmark simulation v10-01a.

Description
New features added into GEOS-Chem:
Developer name(s) and institution(s):
  • Patrick Kim (Harvard)
Version, resolution, met fields used: v10-01, GEOS-FP (47L), 4x5, July 2013
1-month benchmark finished on: Mon Feb 3 15:05:32 EST 2014
Performance statistics:
  • Ran on 8 CPUs of bench@titan-09.as.harvard.edu (2.659 GHz x 8 CPU)
  • Wall time: 2:48
  • Scalability: 6.8703
Compared to previous benchmark: v9-02r w/ GEOS-FP meteorology
This update will impact:
(select all that apply with boldface) 		Advection, BL Mixing, Convection, Met Fields, Dry Dep, Wet Dep, Stratosphere, Anthro Emiss, Biogenic Emiss, Biomass Emiss, Photolysis, Chemistry, Other (please specify):
Plots may be viewed at: ftp://ftp.as.harvard.edu/pub/exchange/mpayer/1mo_quick_look/v10-01a/
Metrics
Global mean OH (from log file): 13.7338316128900 x 105 molec/cm3
Methyl chloroform lifetime: 4.6707 years
Did either of these change by more than 5%? No. The mean OH differs by -0.02%, and the MCF lifetimes differ by 0.07%.
At the SURFACE, list all species that changed by 10% or more: NO, O3, PAN, ISOP, HNO3, H2O2, MEK, ALD2, RCHO, MVK, MACR, PMN, PPN, R4N2, PRPE, N2O5, DMS, NH3, NH4, NIT, OCPI, DST4, Br2, Br, BrO, HOBr, HBr, BrNO2, BrNO3, MPN, ISOPN, MOBA, PROPNN, HAC, GLYC, MMN, RIP, IEPOX, MAP, NO3, OH
Comments on SURFACE differences:
  • Differences in isoprene related tracers can be attributed to changing biogenic emissions because we now force the MODIS LAI year to 2008.
  • Differences in NO, DST4, and the bromine species are due to small number differences where concentrations are low.
  • Differences in NH4 and NIT can be attributed to numerical noise from ISORROPIA.
At 500 hPa, list all species that changed by 10% or more: NO, ISOP, MVK, MACR, PMN, PRPE, N2O5, DMS, NH3, NIT, DST4, Br2, ISOPN, MOBA, HAC, GLYC, MMN, RIP, IEPOX, NO3
Comments on 500 hPa differences:
  • Differences in NO, DST4, and Br2 are due to small number differences where concentrations are low.
  • Differences in NH3 and NIT can be attributed to numerical noise from ISORROPIA.
In the ZONAL MEAN differences, list all species that changed by 10% or more: NO, ALK4, ISOP, MVK, MACR, PMN, PRPE, C3H8, N2O5, NH3, NIT, NITs, DST4, Br2, ISOPN, MOBA, HAC, GLYC, MMN, RIP, IEPOX
Comments on ZONAL MEAN differences:
  • Differences in isoprene related tracers can be attributed to changing biogenic emissions because we now force the MODIS LAI year to 2008.
  • Differences in NO, ALK4, C3H8, N2O5, NITs, DST4, Br2, are due to small number differences where concentrations are low.
  • Differences in NH3 and NIT can be attributed to numerical noise from ISORROPIA.
In the EMISSION RATIO maps, list all species that changed by 10% or more: ISOP, ACET, OC, PRPE, CO from monoterpenes
Comments on EMISSION RATIO differences:
  • Biogenic emissions differ because we now force the use of MODIS LAI for 2008 if the simulation year is beyond 2008. MODIS LAI for 2009 was used in the benchmark v9-02r w/ GEOS-FP met, but there are large differences in the 2009 file that still need to be investigated.
Additional or summary comments: We still need to determine what caused the changes in the MODIS LAI input files. As per our earlier discussion, we have put in an error trap in drydep_mod to make sure that the changes are only made for simulations using GEOS-FP and the Olson 2001 land map.
Approval
Requires further investigation: No
Approved by: Patrick Kim
Date of approval: 5 Feb 2014

--Melissa Sulprizio 12:16, 3 February 2014 (EST)

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