CMAQv5.2 benchmark difference

Hi all,

I built and ran CMAQv5.2 without any error. Here is the rum cctm log file
https://raw.githubusercontent.com/JiaoyanHuang/Testing-codes/master/run.cctm_1day_v2.log

I downloaded reference data from
https://drive.google.com/drive/folders/0B2kjxCwKICxUZWp2ZVFGZkx6YzA

after

tar xzvf CMAQv5.2_Benchmark_SingleDay_Output_09_05_2017.tar.gz

I do see two ACONC files in the dir

-rw-r--r-- 1 jhuang hpc  174445528 Aug 31  2017 CCTM_ACONC_v52_cb6r3_intel17.0_SE52BENCH_20110701.nc
-rw-r--r-- 1 jhuang hpc  174445528 Jun 28  2017 CCTM_ACONC_v52_intel_SE52BENCH_20110701.nc

Here are all my reference files

CMAQv5.2_Benchmark_MultiDay_Input_09_05_2017.tar.gz
https://drive.google.com/open?id=1iBV-hGvIxGEQzdW8E1tXIwaaRUNeW7_K
CMAQv5.2_Benchmark_MultiDay_Output_09_05_2017.tar.gz
https://drive.google.com/open?id=0B3Xmjif6GtQZLUk2NFlfcENXZGs
CMAQv5.2_Benchmark_SingleDay_Input_09_12_2017.tar.gz
https://drive.google.com/open?id=1C7ZnaK8yNRu9yQotHTvRdhLIdfaCoaEv
CMAQv5.2_Benchmark_SingleDay_Output_09_05_2017.tar.gz
https://drive.google.com/open?id=1VA6ofMAuk3zoHwwr7slgYvoAK4kk7typ

My simulations have <0.5% difference for O3 compared with

CCTM_ACONC_v52_intel_SE52BENCH_20110701.nc

but show large difference for O3 compared with

CCTM_ACONC_v52_cb6r3_intel17.0_SE52BENCH_20110701.nc

Also large difference compared with reference data when I ran multiday simulations

I am a little confused here, what data I should use for benchmark run?

Thank you.

Joey