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本帖最后由 函数与激情 于 2023-12-30 16:47 编辑
尝试用CP2K的QM/MM方法去跑一个纯水盒子,诡异的现象是任务死掉后而没有任何报错,Log文件中只打印到一些CP2K的安装、版本信息后就戛然而止了。。
之前也尝试过CP2K的QM/MM模拟做些复杂体系,但是从没有遇到过这种情况,输入应该没有问题,也尝试了不同版本的安装版本,均是如此,请问有了解这是咋回事的吗?
- DBCSR| CPU Multiplication driver XSMM
- DBCSR| Multrec recursion limit 512
- DBCSR| Multiplication stack size 1000
- DBCSR| Maximum elements for images UNLIMITED
- DBCSR| Multiplicative factor virtual images 1
- DBCSR| Use multiplication densification T
- DBCSR| Multiplication size stacks 3
- DBCSR| Use memory pool for CPU allocation F
- DBCSR| Number of 3D layers SINGLE
- DBCSR| Use MPI memory allocation F
- DBCSR| Use RMA algorithm F
- DBCSR| Use Communication thread T
- DBCSR| Communication thread load 87
- DBCSR| MPI: My node id 0
- DBCSR| MPI: Number of nodes 1
- DBCSR| OMP: Current number of threads 1
- DBCSR| OMP: Max number of threads 1
- DBCSR| Split modifier for TAS multiplication algorithm 1.0E+00
- **** **** ****** ** PROGRAM STARTED AT 2023-12-30 16:32:40.673
- ***** ** *** *** ** PROGRAM STARTED ON node2
- ** **** ****** PROGRAM STARTED BY user
- ***** ** ** ** ** PROGRAM PROCESS ID 133482
- **** ** ******* ** PROGRAM STARTED IN /share/home/user/work//qmmm
- CP2K| version string: CP2K version 9.1
- CP2K| source code revision number: git:d8d7100
- CP2K| cp2kflags: omp libint fftw3 libxc pexsi elpa parallel mpi3 scalapack cosm
- CP2K| a quip xsmm plumed2 spglib mkl sirius libvori libbqb
- CP2K| is freely available from https://www.cp2k.org/
- CP2K| Program compiled at Wed May 17 18:52:52 CST 2023
- CP2K| Program compiled on mgr
- CP2K| Program compiled for local
- CP2K| Data directory path /share/apps/cp2k-9.1-mpich/data
- CP2K| Input file name md.inp
复制代码 slurm中显示是一些看不懂的信息
- Program received signal SIGSEGV: Segmentation fault - invalid memory reference.
- Backtrace for this error:
- #0 0x2acf898cf3ff in ???
- #1 0x2d1d995 in __cp_units_MOD_cp_unit_to_cp2k1
- at /share/apps/cp2k-9.1-mpich/src/common/cp_units.F:1125
- #2 0x2d209cd in __cp_units_MOD_cp_unit_to_cp2k
- at /share/apps/cp2k-9.1-mpich/src/common/cp_units.F:1196
- #3 0x18de03c in __force_fields_ext_MOD_read_force_field_amber
- at /share/apps/cp2k-9.1-mpich/src/force_fields_ext.F:768
- #4 0x18bdd34 in __force_fields_MOD_force_field_control
- at /share/apps/cp2k-9.1-mpich/src/force_fields.F:161
- #5 0x1888cc3 in __fist_environment_MOD_fist_init
- at /share/apps/cp2k-9.1-mpich/src/fist_environment.F:179
- #6 0x10b3a7f in __qmmm_create_MOD_qmmm_env_create
- at /share/apps/cp2k-9.1-mpich/src/qmmm_create.F:237
- #7 0xe13c7a in __f77_interface_MOD_create_force_env
- at /share/apps/cp2k-9.1-mpich/src/f77_interface.F:802
- #8 0x85b449 in cp2k_run
- at /share/apps/cp2k-9.1-mpich/src/start/cp2k_runs.F:309
- #9 0x85f731 in __cp2k_runs_MOD_run_input
- at /share/apps/cp2k-9.1-mpich/src/start/cp2k_runs.F:991
- #10 0x859efd in cp2k
- at /share/apps/cp2k-9.1-mpich/src/start/cp2k.F:387
- #11 0x516ddc in main
- at /share/apps/cp2k-9.1-mpich/src/start/cp2k.F:44
- ===================================================================================
- = BAD TERMINATION OF ONE OF YOUR APPLICATION PROCESSES
- = PID 133482 RUNNING AT node2
- = EXIT CODE: 139
- = CLEANING UP REMAINING PROCESSES
- = YOU CAN IGNORE THE BELOW CLEANUP MESSAGES
- ===================================================================================
- YOUR APPLICATION TERMINATED WITH THE EXIT STRING: Segmentation fault (signal 11)
- This typically refers to a problem with your application.
- Please see the FAQ page for debugging suggestions
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input.zip
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