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petersen

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[½»Á÷] ¡¾ÇóÖú¡¿amber²¢Ðа²×°²âÊÔ³ö´í£¨×ܸоõÂÛ̳ԽÀ´Ô½ÀäÇåÁË-_-!£©

amber²¢Ðа²×°²âÊÔ³ö´í£¬Ç°Ãæ´®Ðа²×°·Ç³£Ë³Àû£¬make parallelÒ²ÏÔʾ²¢Ðа²×°Íê³É£¬µ«ÊDz¢ÐвâÊÔʼÖÕͨ²»¹ý
make test.parallel.MM < /dev/null£º
export TESTsander=/share/apps/amber10/exe/sander.MPI; make test.sander.BASIC
make[1]: Entering directory `/share/apps/amber10/test'
cd cytosine && ./Run.cytosine
[cluster:07680] *** Process received signal ***
[cluster:07680] Signal: Segmentation fault (11)
[cluster:07680] Signal code: Address not mapped (1)
[cluster:07680] Failing at address: 0x50
[cluster:07680] [ 0] /lib64/libpthread.so.0 [0x357dc0e7c0]
[cluster:07680] [ 1] /opt/openmpi/lib/libopen-rte.so.0(orte_util_encode_pidmap+0xdb) [0x2b4d87bb25eb]
[cluster:07680] [ 2] /opt/openmpi/lib/libopen-rte.so.0(orte_odls_base_default_get_add_procs_data+0x598) [0x2b4d87bc91b8]
[cluster:07680] [ 3] /opt/openmpi/lib/libopen-rte.so.0(orte_plm_base_launch_apps+0x10b) [0x2b4d87bd82bb]
[cluster:07680] [ 4] /opt/openmpi/lib/libopen-rte.so.0 [0x2b4d87bdc9d4]
[cluster:07680] [ 5] mpirun [0x403246]
[cluster:07680] [ 6] mpirun [0x402923]
[cluster:07680] [ 7] /lib64/libc.so.6(__libc_start_main+0xf4) [0x357d01d994]
[cluster:07680] [ 8] mpirun [0x402859]
[cluster:07680] *** End of error message ***
Segmentation fault
  ./Run.cytosine:  Program error
make[1]: *** [test.sander.BASIC] Error 1
make[1]: Leaving directory `/share/apps/amber10/test'
make: *** [test.sander.BASIC.MPI] Error 2
ºÃÐÄÈË˵¿ÉÄÜÊÇopenmpiµÄ°æ±¾ÎÊÌ⣬ȻºóÎÒ¾ÍÊÔÁË5¸ö°æ±¾£¬Ã»ÓÐÒ»¸ö²âÊÔͨ¹ýµÄ£¬µ±»»µ½openmpi-1.2.9£¬Ë÷ÐÔmake parallel¶¼¹ý²»È¥ÁË£¬ÇëÎʸÃÔõô°ì°¡£¿£¿£¿£¿£¿
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chenhang07

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4Â¥2010-11-27 07:58:38
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petersen

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ÒýÓûØÌû:
Originally posted by chenhang07 at 2010-11-26 20:07:37:

ллÁ˰¡£¡
3Â¥2010-11-26 20:11:31
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ghcacj(½ð±Ò+2):лл 2010-11-27 13:17:22
ÒýÓûØÌû:
Originally posted by chenhang07 at 2010-11-27 07:58:38:
´ó¼Ò¶¼ËµËµ¿´amberÔõô°²×°ÄØ£¿

Õâ¸öÎÊÌâÎÒÒ²Åöµ½¹ý£¬¼ÇµÃºÃÏñÊÇ»·¾³±äÁ¿ÄÇÀïÓеãÎÊÌ⣬ÄãsourceÁËûÓУ¿
5Â¥2010-11-27 09:06:45
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qphll

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ghcacj(½ð±Ò+5):лл 2010-11-27 13:17:34
petersen(½ð±Ò+3): 2010-11-29 10:44:37
ûÓÐÓùýamber, µ«ÊÇÊ×ÏÈ, ½¨ÒéÄãmake µÄʱºò, ¿ÉÒÔ¼Ó > log, ´Ó¶ø¿ÉÒÔÖªµÀµ½µ×³ÌÐòÖ´ÐÐÁËÄÄЩ²Ù×÷.

È»ºó, ´ÓÄã¸ø³öµÄÐÅÏ¢À´¿´, ÏÔÈ»ÊÇopenmpi³öÁËÎÊÌâ. Äã»òÕß³¢ÊÔÓÃmpich, »òÕß×Ô¼ºÔÙ×Ðϸ×ÁÄ¥ÊÇopenmpiÄÄÀï³öÁËÎÊÌâ.

ÊõÒµÓÐר¹¥, ´ó¼ÒÖ»ÄÜΧ×ÅÇôòÇôò, ²»Ò»¶¨Äܸø³öʵ¼ÊµÄ°ïÖú.
6Â¥2010-11-27 12:32:42
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