Hello, everybody, I recently installed FFTW-3.0.1, mpich-1.2.7 and Gromacs 3.3.3 on my workstation with two 8-cords CPUs. I think i installed them correctly, beause it runs normally with other parellel MD software. It also went nomorally when i run mdrun command in gromacs with 4 nodes. The problem is it doesn't run with when it is up to 8 nodes. In fact, i only change the '-np 4' to '-np 8' in both grompp and mdrun commmand. When i typed the 'top' command, it shows there are only two node are running. And after a little while, it stopped run with the follow error: p7_19858: p4_error: Timeout in establishing connection to remote process: 0 p5_19808: p4_error: Timeout in establishing connection to remote process: 0 p6_19832: p4_error: Timeout in establishing connection to remote process: 0 p0_19710: (324.359375) net_recv failed for fd = 9 p0_19710: p4_error: net_recv read, errno = : 104
In addition, it runs very well, when i use '-np 5' Hope for your help. Thanks Huifang -- Huifang Liu (Ph.D. Student) School of Pharmacy Fudan University 138 Yi Xue Yuan Rd. Tel: (86-21)54237419 (O) Shanghai, China, 200032 Cell phone: +86-13764669357 E-mail: huifangliu1...@gmail.com Fax: (86-21)54237264
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