Using configuration file 1yr_fullchem_benchmark.yml Using species database /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/species_database.yml The following plots and tables will be created for FullChemBenchmark - Concentration plots - Emissions plots - Table of emissions totals by species and inventory - J-values (photolysis rates) plots - Aerosol optical depth plots - Drydep velocity plots - Table of species mass - Aerosol budget/burden tables - Table of strat-trop exchange - Table of OH metrics - Plots of models vs. observations Comparisons will be made for the following combinations: - GCC vs GCC %%% Creating GCC vs. GCC concentration plots %%% Creating plots for annual mean Computing lumped species for full chemistry benchmark -->Adding lumped species to ref dataset -->Adding lumped species to dev dataset Lumped species computation complete. Using configuration file /n/home09/ryantosca/python/gcpy/gcpy/benchmark/modules/benchmark_categories.yml creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Bromine/AnnualMean/Bromine_Surface_AnnualMean.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Sulfur/AnnualMean/Sulfur_Surface_AnnualMean.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Oxidants/AnnualMean/Oxidants_Surface_AnnualMean.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Secondary_Organic_Aerosols/AnnualMean/Secondary_Organic_Aerosols_Surface_AnnualMean.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/ROy/AnnualMean/ROy_Surface_AnnualMean.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Secondary_Organics/AnnualMean/Secondary_Organics_Surface_AnnualMean.pdf Creating plots for Jan Computing lumped species for full chemistry benchmark -->Adding lumped species to ref dataset -->Adding lumped species to dev dataset Lumped species computation complete. Using configuration file /n/home09/ryantosca/python/gcpy/gcpy/benchmark/modules/benchmark_categories.yml creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Primary_Organics/AnnualMean/Primary_Organics_Surface_AnnualMean.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Bromine/Jan2019/Bromine_Surface_Jan2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Nitrogen/AnnualMean/Nitrogen_Surface_AnnualMean.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Iodine/Jan2019/Iodine_Surface_Jan2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Chlorine/AnnualMean/Chlorine_Surface_AnnualMean.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Chlorine/Jan2019/Chlorine_Surface_Jan2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Aerosols/AnnualMean/Aerosols_Surface_AnnualMean.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Nitrogen/Jan2019/Nitrogen_Surface_Jan2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Oxidants/Jan2019/Oxidants_Surface_Jan2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Secondary_Organic_Aerosols/Jan2019/Secondary_Organic_Aerosols_Surface_Jan2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Iodine/AnnualMean/Iodine_Surface_AnnualMean.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Aerosols/Jan2019/Aerosols_Surface_Jan2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/ROy/Jan2019/ROy_Surface_Jan2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Secondary_Organics/Jan2019/Secondary_Organics_Surface_Jan2019.pdf Creating plots for Apr Computing lumped species for full chemistry benchmark -->Adding lumped species to ref dataset -->Adding lumped species to dev dataset Lumped species computation complete. Using configuration file /n/home09/ryantosca/python/gcpy/gcpy/benchmark/modules/benchmark_categories.yml creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Sulfur/Jan2019/Sulfur_Surface_Jan2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Bromine/Apr2019/Bromine_Surface_Apr2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Oxidants/Apr2019/Oxidants_Surface_Apr2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Secondary_Organic_Aerosols/Apr2019/Secondary_Organic_Aerosols_Surface_Apr2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Primary_Organics/Jan2019/Primary_Organics_Surface_Jan2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Aerosols/Apr2019/Aerosols_Surface_Apr2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/ROy/Apr2019/ROy_Surface_Apr2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Secondary_Organics/Apr2019/Secondary_Organics_Surface_Apr2019.pdf Creating plots for Jul Computing lumped species for full chemistry benchmark -->Adding lumped species to ref dataset -->Adding lumped species to dev dataset Lumped species computation complete. Using configuration file /n/home09/ryantosca/python/gcpy/gcpy/benchmark/modules/benchmark_categories.yml creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Primary_Organics/Apr2019/Primary_Organics_Surface_Apr2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Bromine/Jul2019/Bromine_Surface_Jul2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Sulfur/Apr2019/Sulfur_Surface_Apr2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Iodine/Jul2019/Iodine_Surface_Jul2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Chlorine/Apr2019/Chlorine_Surface_Apr2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Chlorine/Jul2019/Chlorine_Surface_Jul2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Nitrogen/Apr2019/Nitrogen_Surface_Apr2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Nitrogen/Jul2019/Nitrogen_Surface_Jul2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Oxidants/Jul2019/Oxidants_Surface_Jul2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Secondary_Organic_Aerosols/Jul2019/Secondary_Organic_Aerosols_Surface_Jul2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Iodine/Apr2019/Iodine_Surface_Apr2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Aerosols/Jul2019/Aerosols_Surface_Jul2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/ROy/Jul2019/ROy_Surface_Jul2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Secondary_Organics/Jul2019/Secondary_Organics_Surface_Jul2019.pdf Creating plots for Oct Computing lumped species for full chemistry benchmark -->Adding lumped species to ref dataset -->Adding lumped species to dev dataset Lumped species computation complete. Using configuration file /n/home09/ryantosca/python/gcpy/gcpy/benchmark/modules/benchmark_categories.yml creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Sulfur/Jul2019/Sulfur_Surface_Jul2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Bromine/Oct2019/Bromine_Surface_Oct2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Oxidants/Oct2019/Oxidants_Surface_Oct2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Secondary_Organic_Aerosols/Oct2019/Secondary_Organic_Aerosols_Surface_Oct2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Primary_Organics/Jul2019/Primary_Organics_Surface_Jul2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Aerosols/Oct2019/Aerosols_Surface_Oct2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/ROy/Oct2019/ROy_Surface_Oct2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Secondary_Organics/Oct2019/Secondary_Organics_Surface_Oct2019.pdf %%% Creating GCC vs. GCC emissions plots %%% Creating plots for annual mean creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Nitrogen/Oct2019/Nitrogen_Surface_Oct2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Sulfur/Oct2019/Sulfur_Surface_Oct2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Iodine/Oct2019/Iodine_Surface_Oct2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Chlorine/Oct2019/Chlorine_Surface_Oct2019.pdf creating /n/holyscratch01/jacob_lab/ryantosca/BM/1yr/14.4.0-rc.0/GCClassic/FullChem/BenchmarkResults/GCC_version_comparison/Primary_Organics/Oct2019/Primary_Organics_Surface_Oct2019.pdf Using configuration file /n/home09/ryantosca/python/gcpy/gcpy/benchmark/modules/benchmark_categories.yml Warning: species MGLY has emissions diagnostics but is not in benchmark_categories.yml Creating plots for Jan Using configuration file /n/home09/ryantosca/python/gcpy/gcpy/benchmark/modules/benchmark_categories.yml Warning: species MGLY has emissions diagnostics but is not in benchmark_categories.yml Creating plots for Apr Using configuration file /n/home09/ryantosca/python/gcpy/gcpy/benchmark/modules/benchmark_categories.yml Warning: species MGLY has emissions diagnostics but is not in benchmark_categories.yml Creating plots for Jul Using configuration file /n/home09/ryantosca/python/gcpy/gcpy/benchmark/modules/benchmark_categories.yml Warning: species MGLY has emissions diagnostics but is not in benchmark_categories.yml Creating plots for Oct Using configuration file /n/home09/ryantosca/python/gcpy/gcpy/benchmark/modules/benchmark_categories.yml Warning: species MGLY has emissions diagnostics but is not in benchmark_categories.yml %%% Creating GCC vs. GCC emissions & inventory totals %%% Computing emissions totals for ACET Computing emissions totals for ALD2 Computing emissions totals for ALK4 Computing emissions totals for BCPI Computing emissions totals for BCPO Computing emissions totals for BENZ Computing emissions totals for BrSALA Computing emissions totals for BrSALC Computing emissions totals for C2H2 Computing emissions totals for C2H4 Computing emissions totals for C2H6 Computing emissions totals for C3H8 Computing emissions totals for CH2Br2 Computing emissions totals for CH2O Computing emissions totals for CHBr3 Computing emissions totals for CO Computing emissions totals for DMS Computing emissions totals for DST1 Computing emissions totals for DST2 Computing emissions totals for DST3 Computing emissions totals for DST4 Computing emissions totals for EOH Computing emissions totals for ETNO3 Computing emissions totals for FURA No emissions found for GLYC ... skippping Computing emissions totals for GLYX No emissions found for HAC ... skippping Computing emissions totals for HCl Computing emissions totals for HCOOH No emissions found for HNO2 ... skippping Computing emissions totals for HNO3 Computing emissions totals for ISOP Computing emissions totals for LIMO Computing emissions totals for MACR Computing emissions totals for MEK Computing emissions totals for MENO3 Computing emissions totals for MGLY Computing emissions totals for MTPA Computing emissions totals for MTPO Computing emissions totals for NH3 Computing emissions totals for NO Computing emissions totals for NO2 Computing emissions totals for OCPI Computing emissions totals for OCPO Computing emissions totals for PRPE Computing emissions totals for RCHO Computing emissions totals for SALA Computing emissions totals for SALC Computing emissions totals for SO2 Computing emissions totals for SO4 Computing emissions totals for SOAP Computing emissions totals for SOAS Computing emissions totals for TOLU Computing emissions totals for XYLE Computing emissions totals for pFe Computing inventory totals for AEIC Computing inventory totals for AFCID No emissions found for APEI ... skippping Computing inventory totals for C2H62010 Computing inventory totals for CEDS Computing inventory totals for CEDSship Computing inventory totals for DEAD No emissions found for DICEAfrica ... skippping Computing inventory totals for GEIAnatural Computing inventory totals for GFED Computing inventory totals for GTChlorine Computing inventory totals for IODINE Computing inventory totals for LIANG Computing inventory totals for LIGHTNOX Computing inventory totals for MEGAN No properties found for AAXX ... skippping No properties found for APIN ... skippping No properties found for BCAR ... skippping No properties found for BPIN ... skippping No properties found for CARE ... skippping No properties found for FARN ... skippping No properties found for FAXX ... skippping No properties found for MBOX ... skippping No properties found for MYRC ... skippping No properties found for OCIM ... skippping No properties found for OMON ... skippping No properties found for OSQT ... skippping No properties found for SABI ... skippping No emissions found for MIX ... skippping No emissions found for NEI2011 ... skippping Computing inventory totals for ORDONEZ Computing inventory totals for PARANOX Computing inventory totals for PLANTDECAY Computing inventory totals for SEABIRDS Computing inventory totals for SeaFlux Computing inventory totals for SeaSalt Computing inventory totals for SOILNOX Computing inventory totals for VOLCANOdegas Computing inventory totals for VOLCANOerupt Computing inventory totals for XIAO %%% Creating GCC vs. GCC J-value plots %%% Creating plots for annual mean Creating plots for Jan Creating plots for Apr Creating plots for Jul Creating plots for Oct %%% Creating GCC vs. GCC column AOD plots %%% Creating plots for annual mean Creating plots for Jan Creating plots for Apr Creating plots for Jul Creating plots for Oct %%% Creating GCC vs. GCC drydep plots %%% Creating plots for annual mean Creating plots for Jan Creating plots for Apr Creating plots for Jul Creating plots for Oct %%% Creating GCC vs. GCC mass tables %%% %%% Creating GCC vs. GCC aerosols budget tables %%% Annual average global aerosol burdens for 2019 in gcc-14.4.0-rc.0 Annual average global AODs for 2019 in gcc-14.4.0-rc.0 %%% Creating GCC vs. GCC Ox budget table %%% %%% Creating GCC vs. GCC Strat-Trop Exchange table %%% %%% Creating GCC vs. GCC Benchmark Timing table %%% %%% Creating GCC vs. GCC OH metrics %%% %%% Creating GCC vs. GCC models vs. obs. plots %%% %%%% All requested benchmark plots/tables created! %%%%