loading system configuration loading override configuration from /zhome/89/0/38697/mxtest/mctest/../mccodelib/mcxtrace-test/McXtrace-1.x_CPU_MPICC/mccode_config.json INFO: Using directory: "3" INFO: Using existing c-file: ./Test_Absorption.c INFO: Using existing binary: ./Test_Absorption.out WARNING: Ignoring invalid parameter: "Test_Absorption.instr" INFO: === INFO: Using system default number of mpirun -np processes -------------------------------------------------------------------------- By default, for Open MPI 4.0 and later, infiniband ports on a device are not used by default. The intent is to use UCX for these devices. You can override this policy by setting the btl_openib_allow_ib MCA parameter to true. Local host: n-62-29-31 Local adapter: mlx4_0 Local port: 1 -------------------------------------------------------------------------- -------------------------------------------------------------------------- WARNING: There was an error initializing an OpenFabrics device. Local host: n-62-29-31 Local device: mlx4_0 -------------------------------------------------------------------------- Simulation 'Test_Absorption' (/zhome/89/0/38697/xTESTS/2022-12-01/McXtrace-1.x_CPU_MPICC_1e7/Test_Absorption/Test_Absorption.instr): running on 10 nodes (master is 'n-62-29-31', MPI version 3.1). [Test_Absorption] Initialize [Test_Absorption] Initialize [Test_Absorption] Initialize [Test_Absorption] Initialize [Test_Absorption] Initialize [Test_Absorption] Initialize WARNING: (Table_Rebin): Rebinning table from Mn.txt would exceed 1M rows. Skipping. WARNING: (Table_Rebin): Rebinning table from Mn.txt would exceed 1M rows. Skipping. Warning: sample_scan2: Invalid inner volume specification. Ignoring. WARNING: (Table_Rebin): Rebinning table from Mn.txt would exceed 1M rows. Skipping. Warning: sample_scan2: Invalid inner volume specification. Ignoring. sample_scan1: Rebinning material data (Mn.txt) for faster tracing...done sample_scan1: Rebinning material data (Mn.txt) for faster tracing...done INFO: sample_scan2: Setting rho_o=7.43 from Mn.txt sample_scan1: Rebinning material data (Mn.txt) for faster tracing...done INFO: sample_scan2: Setting rho_o=7.43 from Mn.txt INFO: sample_scan2: Setting rho_o=7.43 from Mn.txt Warning: sample_scan2: Invalid inner volume specification. Ignoring. Opening input file '/zhome/89/0/38697/McXtrace/mcxtrace/1.x-dev/tools/Python/mxrun/../mccodelib/../../../data/Mn.txt' (Table_Read_Offset) WARNING: (Table_Rebin): Rebinning table from Mn.txt would exceed 1M rows. Skipping. WARNING: (Table_Rebin): Rebinning table from Mn.txt would exceed 1M rows. Skipping. Warning: sample_scan2: Invalid inner volume specification. Ignoring. sample_scan1: Rebinning material data (Mn.txt) for faster tracing...done INFO: sample_scan2: Setting rho_o=7.43 from Mn.txt sample_scan1: Rebinning material data (Mn.txt) for faster tracing...done Warning: sample_scan2: Invalid inner volume specification. Ignoring. INFO: sample_scan2: Setting rho_o=7.43 from Mn.txt WARNING: (Table_Rebin): Rebinning table from Mn.txt would exceed 1M rows. Skipping. sample_scan1: Rebinning material data (Mn.txt) for faster tracing...done Warning: sample_scan2: Invalid inner volume specification. Ignoring. INFO: sample_scan2: Setting rho_o=7.43 from Mn.txt Loading geometry file (OFF/PLY): cube.off sample_scan3: Volume[1], material='Mn.txt' geometry='cube.off' sample_scan3: Volume[1], material='Mn.txt' geometry='cube.off' [Test_Absorption] Initialize [Test_Absorption] Initialize [Test_Absorption] Initialize Number of vertices: 8 Number of polygons: 6 Warning: Aspect ratio of the geometry cube.off was modified. If you want to keep the original proportions, specifiy only one of the dimensions. Bounding box dimensions for geometry cube.off: Length=0.001000 (0.100%) Width= 0.001000 (0.100%) Depth= 0.000100 (0.010%) sample_scan3: Volume[1], material='Mn.txt' geometry='cube.off' sample_scan3: Volume[1], material='Mn.txt' geometry='cube.off' WARNING: (Table_Rebin): Rebinning table from Mn.txt would exceed 1M rows. Skipping. sample_scan1: Rebinning material data (Mn.txt) for faster tracing...done sample_scan3: Volume[1], material='Mn.txt' geometry='cube.off' Warning: sample_scan2: Invalid inner volume specification. Ignoring. [Test_Absorption] Initialize WARNING: (Table_Rebin): Rebinning table from Mn.txt would exceed 1M rows. Skipping. WARNING: (Table_Rebin): Rebinning table from Mn.txt would exceed 1M rows. Skipping. INFO: sample_scan2: Setting rho_o=7.43 from Mn.txt Warning: sample_scan2: Invalid inner volume specification. Ignoring. Warning: sample_scan2: Invalid inner volume specification. Ignoring. sample_scan1: Rebinning material data (Mn.txt) for faster tracing...done sample_scan1: Rebinning material data (Mn.txt) for faster tracing...done INFO: sample_scan2: Setting rho_o=7.43 from Mn.txt INFO: sample_scan2: Setting rho_o=7.43 from Mn.txt WARNING: (Table_Rebin): Rebinning table from Mn.txt would exceed 1M rows. Skipping. Warning: sample_scan2: Invalid inner volume specification. Ignoring. sample_scan1: Rebinning material data (Mn.txt) for faster tracing...done INFO: sample_scan2: Setting rho_o=7.43 from Mn.txt sample_scan3: Volume[1], material='Mn.txt' geometry='cube.off' sample_scan3: Volume[1], material='Mn.txt' geometry='cube.off' sample_scan3: Volume[1], material='Mn.txt' geometry='cube.off' sample_scan3: Volume[1], material='Mn.txt' geometry='cube.off' sample_scan3: Volume[1], material='Mn.txt' geometry='cube.off' [n-62-29-31:06744] 9 more processes have sent help message help-mpi-btl-openib.txt / ib port not selected [n-62-29-31:06744] Set MCA parameter "orte_base_help_aggregate" to 0 to see all help / error messages [n-62-29-31:06744] 9 more processes have sent help message help-mpi-btl-openib.txt / error in device init Trace ETA 12 [s] % 88 Trace ETA 12 [s] % 89 Trace ETA 12 [s] % 86 89 90 87 90 91 88 92 91 89 93 92 90 94 93 91 95 94 92 96 95 93 97 96 94 Trace ETA 11 [s] % 95 Trace ETA 11 [s] % 99 Trace ETA 11 [s] % 98 Trace ETA 11 [s] % 96 Trace ETA 11 [s] % 96 Trace ETA 11 [s] % 98 98 97 95 Finally [Test_Absorption: 3]. Time: 11 [s] 96 99 97 99 99 97 98 96 Finally [Test_Absorption: 3]. Time: 11 [s] Finally [Test_Absorption: 3]. Time: 11 [s] Finally [Test_Absorption: 3]. Time: 11 [s] Finally [Test_Absorption: 3]. Time: 12 [s] 97 98 98 99 97 98 99 99 Finally [Test_Absorption: 3]. Time: 11 [s] 98 99 Finally [Test_Absorption: 3]. Time: 11 [s] 99 Save [Test_Absorption] Detector: emon_I=8.21603e-12 emon_ERR=1.31286e-14 emon_N=1.04083e+06 "emon.dat" Finally [Test_Absorption: 3]. Time: 12 [s] Finally [Test_Absorption: 3]. Time: 12 [s] Detector: psd_I=8.67108e-09 psd_ERR=4.14504e-12 psd_N=8.79025e+06 "psd.dat" Finally [Test_Absorption: 3]. Time: 11 [s] INFO: Placing instr file copy /zhome/89/0/38697/xTESTS/2022-12-01/McXtrace-1.x_CPU_MPICC_1e7/Test_Absorption/Test_Absorption.instr in dataset 3