Re: Memory keep increasing.

From: Ming (ebullience_at_emails.bjut.edu.cn)
Date: Sat Nov 14 2009 - 20:28:49 CST

Hi Dow,
Thanks for your reply. I'm sorry I don't understand what you said. I'm very poor on runing a on a SGI station. Could you please tell me what XFS mean? I didn'y run sync. Again, I don't know why you ask me to run sync. Do you mean I shold tell the system save some data into hard drive but not buffer?

I ran the "free" command and i didn't find out any decrease in cached filesystem data. Any suggestions? Thanks in advance!

>From: Dow_Hurst <dhurst_at_mindspring.com>
>Reply-To: Dow_Hurst <Dow.Hurst_at_mindspring.com>
>To: Ming <ebullience_at_emails.bjut.edu.cn>
>Subject: Re: namd-l: Memory keep increasing.
>Date:Sat, 14 Nov 2009 02:10:51 -0500 (EST)
>
>I remember that XFS loves to cache data. Have you run sync on the workstation during the run? And, measured any decrease in cached filesystem data?
>Dow
>
>-----Original Message-----
>>From: Ming

>>Sent: Nov 13, 2009 12:51 AM
>>To: akohlmey_at_gmail.com
>>Cc: namd-l_at_ks.uiuc.edu
>>Subject: Re: namd-l: Memory keep increasing.
>>
>>Hi Axel,
>>Thanks for your reply. I've been keeping moitering the memory changes. I found the memory still kept increasing while the job is runing. Below is the output of the "free -m -s 30". I'm sure nobody else uses this SGI Altix station. Is this increase in memory normal? Thanks!
>>
>>P.S.By the way, I found the used memory increased by 6G within 12 hours.
>>
>> total used free shared buffers cached
>>Mem: 61521 11543 49978 0 0 166
>>-/+ buffers/cache: 11377 50144
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11553 49968 0 0 171
>>-/+ buffers/cache: 11382 50139
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11555 49965 0 0 171
>>-/+ buffers/cache: 11384 50137
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11558 49963 0 0 172
>>-/+ buffers/cache: 11385 50135
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11561 49960 0 0 173
>>-/+ buffers/cache: 11387 50134
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11563 49957 0 0 174
>>-/+ buffers/cache: 11389 50132
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11565 49956 0 0 175
>>-/+ buffers/cache: 11390 50131
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11569 49952 0 0 176
>>-/+ buffers/cache: 11393 50128
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11571 49950 0 0 177
>>-/+ buffers/cache: 11394 50127
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11570 49950 0 0 177
>>-/+ buffers/cache: 11393 50128
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11573 49948 0 0 178
>>-/+ buffers/cache: 11394 50127
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11575 49946 0 0 179
>>-/+ buffers/cache: 11395 50125
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11577 49944 0 0 180
>>-/+ buffers/cache: 11396 50124
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11578 49943 0 0 181
>>-/+ buffers/cache: 11397 50124
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11582 49938 0 0 182
>>-/+ buffers/cache: 11399 50121
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11584 49937 0 0 183
>>-/+ buffers/cache: 11400 50121
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11585 49935 0 0 184
>>-/+ buffers/cache: 11401 50120
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11587 49934 0 0 184
>>-/+ buffers/cache: 11402 50119
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11588 49932 0 0 185
>>-/+ buffers/cache: 11403 50118
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11588 49932 0 0 186
>>-/+ buffers/cache: 11402 50119
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11592 49928 0 0 187
>>-/+ buffers/cache: 11405 50116
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11594 49927 0 0 188
>>-/+ buffers/cache: 11405 50115
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11595 49926 0 0 189
>>-/+ buffers/cache: 11406 50115
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11597 49924 0 0 190
>>-/+ buffers/cache: 11407 50114
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11598 49922 0 0 190
>>-/+ buffers/cache: 11407 50113
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11600 49921 0 0 191
>>-/+ buffers/cache: 11408 50113
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11602 49919 0 0 193
>>-/+ buffers/cache: 11408 50112
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11603 49918 0 0 193
>>-/+ buffers/cache: 11409 50112
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11604 49916 0 0 194
>>-/+ buffers/cache: 11410 50111
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11604 49917 0 0 195
>>-/+ buffers/cache: 11409 50112
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11605 49915 0 0 196
>>-/+ buffers/cache: 11409 50112
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11607 49914 0 0 197
>>-/+ buffers/cache: 11410 50111
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11609 49912 0 0 198
>>-/+ buffers/cache: 11410 50110
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11611 49909 0 0 199
>>-/+ buffers/cache: 11412 50109
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11613 49907 0 0 200
>>-/+ buffers/cache: 11413 50108
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11615 49906 0 0 201
>>-/+ buffers/cache: 11414 50107
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11617 49903 0 0 202
>>-/+ buffers/cache: 11415 50105
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11619 49902 0 0 202
>>-/+ buffers/cache: 11416 50105
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11621 49900 0 0 204
>>-/+ buffers/cache: 11416 50105
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11615 49905 0 0 205
>>-/+ buffers/cache: 11410 50111
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11616 49904 0 0 206
>>-/+ buffers/cache: 11410 50111
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11618 49903 0 0 207
>>-/+ buffers/cache: 11410 50110
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11619 49902 0 0 208
>>-/+ buffers/cache: 11411 50110
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11620 49901 0 0 208
>>-/+ buffers/cache: 11411 50110
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11622 49899 0 0 210
>>-/+ buffers/cache: 11411 50110
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11625 49896 0 0 211
>>-/+ buffers/cache: 11413 50108
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11625 49896 0 0 212
>>-/+ buffers/cache: 11412 50108
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11627 49894 0 0 213
>>-/+ buffers/cache: 11413 50108
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11628 49893 0 0 214
>>-/+ buffers/cache: 11414 50107
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11629 49892 0 0 214
>>-/+ buffers/cache: 11414 50106
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11631 49890 0 0 216
>>-/+ buffers/cache: 11414 50107
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11633 49888 0 0 217
>>-/+ buffers/cache: 11415 50106
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11634 49887 0 0 218
>>-/+ buffers/cache: 11416 50105
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11636 49885 0 0 218
>>-/+ buffers/cache: 11417 50103
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11638 49883 0 0 219
>>-/+ buffers/cache: 11418 50102
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11640 49880 0 0 220
>>-/+ buffers/cache: 11420 50101
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11643 49877 0 0 222
>>-/+ buffers/cache: 11421 50100
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11645 49876 0 0 223
>>-/+ buffers/cache: 11422 50099
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11647 49874 0 0 223
>>-/+ buffers/cache: 11423 50098
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11647 49874 0 0 224
>>-/+ buffers/cache: 11422 50098
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11648 49872 0 0 224
>>-/+ buffers/cache: 11423 50097
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11650 49871 0 0 225
>>-/+ buffers/cache: 11424 50096
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11653 49868 0 0 227
>>-/+ buffers/cache: 11425 50095
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11654 49867 0 0 227
>>-/+ buffers/cache: 11426 50095
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11655 49866 0 0 228
>>-/+ buffers/cache: 11426 50094
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11656 49864 0 0 228
>>-/+ buffers/cache: 11427 50093
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11658 49863 0 0 229
>>-/+ buffers/cache: 11428 50092
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11660 49861 0 0 230
>>-/+ buffers/cache: 11429 50092
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11661 49859 0 0 231
>>-/+ buffers/cache: 11430 50091
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11666 49855 0 0 233
>>-/+ buffers/cache: 11432 50088
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11666 49854 0 0 234
>>-/+ buffers/cache: 11432 50088
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11667 49854 0 0 234
>>-/+ buffers/cache: 11432 50089
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11670 49851 0 0 235
>>-/+ buffers/cache: 11435 50086
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11670 49851 0 0 236
>>-/+ buffers/cache: 11434 50087
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11677 49844 0 0 239
>>-/+ buffers/cache: 11437 50084
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11678 49843 0 0 241
>>-/+ buffers/cache: 11437 50084
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11679 49841 0 0 241
>>-/+ buffers/cache: 11437 50083
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11680 49840 0 0 242
>>-/+ buffers/cache: 11438 50083
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11682 49839 0 0 242
>>-/+ buffers/cache: 11439 50082
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11683 49838 0 0 243
>>-/+ buffers/cache: 11439 50081
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11683 49838 0 0 244
>>-/+ buffers/cache: 11439 50082
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11686 49834 0 0 245
>>-/+ buffers/cache: 11441 50080
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11688 49833 0 0 245
>>-/+ buffers/cache: 11442 50079
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11689 49832 0 0 246
>>-/+ buffers/cache: 11443 50078
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11690 49830 0 0 246
>>-/+ buffers/cache: 11444 50077
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11714 49807 0 0 268
>>-/+ buffers/cache: 11445 50075
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11790 49730 0 0 287
>>-/+ buffers/cache: 11503 50018
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11810 49711 0 0 289
>>-/+ buffers/cache: 11520 50001
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11811 49710 0 0 290
>>-/+ buffers/cache: 11520 50001
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11818 49703 0 0 290
>>-/+ buffers/cache: 11527 49994
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11856 49665 0 0 293
>>-/+ buffers/cache: 11563 49958
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11872 49648 0 0 295
>>-/+ buffers/cache: 11577 49944
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11874 49647 0 0 295
>>-/+ buffers/cache: 11578 49943
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11877 49643 0 0 296
>>-/+ buffers/cache: 11580 49940
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11879 49642 0 0 297
>>-/+ buffers/cache: 11581 49939
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11881 49640 0 0 298
>>-/+ buffers/cache: 11583 49938
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11883 49637 0 0 298
>>-/+ buffers/cache: 11585 49936
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11884 49637 0 0 299
>>-/+ buffers/cache: 11584 49936
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11893 49628 0 0 301
>>-/+ buffers/cache: 11591 49929
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11904 49617 0 0 303
>>-/+ buffers/cache: 11600 49921
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11901 49619 0 0 304
>>-/+ buffers/cache: 11597 49924
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11904 49617 0 0 305
>>-/+ buffers/cache: 11599 49922
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11905 49616 0 0 305
>>-/+ buffers/cache: 11599 49922
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11905 49615 0 0 306
>>-/+ buffers/cache: 11599 49921
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11907 49614 0 0 306
>>-/+ buffers/cache: 11600 49920
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11909 49611 0 0 307
>>-/+ buffers/cache: 11601 49919
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11910 49610 0 0 308
>>-/+ buffers/cache: 11602 49919
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11912 49608 0 0 309
>>-/+ buffers/cache: 11603 49917
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11914 49607 0 0 309
>>-/+ buffers/cache: 11604 49916
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11917 49604 0 0 309
>>-/+ buffers/cache: 11607 49914
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11924 49597 0 0 310
>>-/+ buffers/cache: 11613 49907
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11939 49582 0 0 313
>>-/+ buffers/cache: 11625 49895
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11951 49569 0 0 314
>>-/+ buffers/cache: 11637 49884
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11969 49552 0 0 314
>>-/+ buffers/cache: 11654 49866
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 11995 49526 0 0 314
>>-/+ buffers/cache: 11680 49841
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 12013 49508 0 0 315
>>-/+ buffers/cache: 11697 49823
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 12032 49489 0 0 316
>>-/+ buffers/cache: 11715 49806
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 12048 49472 0 0 318
>>-/+ buffers/cache: 11730 49790
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 12061 49459 0 0 318
>>-/+ buffers/cache: 11743 49778
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 12083 49438 0 0 322
>>-/+ buffers/cache: 11760 49761
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 12093 49428 0 0 323
>>-/+ buffers/cache: 11769 49751
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 12108 49413 0 0 326
>>-/+ buffers/cache: 11781 49739
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 12133 49388 0 0 331
>>-/+ buffers/cache: 11802 49719
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 12157 49364 0 0 340
>>-/+ buffers/cache: 11817 49704
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 12169 49351 0 0 340
>>-/+ buffers/cache: 11829 49692
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 12189 49332 0 0 343
>>-/+ buffers/cache: 11845 49675
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 12196 49325 0 0 343
>>-/+ buffers/cache: 11852 49669
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 12207 49314 0 0 344
>>-/+ buffers/cache: 11862 49658
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 12219 49301 0 0 345
>>-/+ buffers/cache: 11874 49647
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 12236 49285 0 0 346
>>-/+ buffers/cache: 11889 49632
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 12253 49268 0 0 347
>>-/+ buffers/cache: 11905 49615
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 12259 49262 0 0 347
>>-/+ buffers/cache: 11911 49609
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 12263 49258 0 0 347
>>-/+ buffers/cache: 11915 49606
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 12274 49247 0 0 348
>>-/+ buffers/cache: 11926 49595
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 12281 49240 0 0 348
>>-/+ buffers/cache: 11932 49588
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 12284 49237 0 0 349
>>-/+ buffers/cache: 11935 49586
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 12285 49235 0 0 349
>>-/+ buffers/cache: 11936 49585
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 12292 49229 0 0 350
>>-/+ buffers/cache: 11942 49579
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 12309 49212 0 0 350
>>-/+ buffers/cache: 11958 49563
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 12315 49206 0 0 351
>>-/+ buffers/cache: 11963 49558
>>Swap: 9999 0 9999
>>
>> total used free shared buffers cached
>>Mem: 61521 12322 49199 0 0 352
>>-/+ buffers/cache: 11970 49551
>>Swap: 9999 0 9999
>>
>>
>>
>>
>>
>>
>>
>>
>>
>>
>>>From: Axel Kohlmeyer

>>>Reply-To:
>>>To: Ming

>>>Subject: Re: namd-l: Memory keep increasing.
>>>Date:Thu, 12 Nov 2009 08:36:00 -0500
>>>
>>>2009/11/12 Ming
>>:
>>>> Dear all,
>>>>
>>>> I am using the NAMD_2.6_Linux-ia64-MPT version on a SGI Altix 64 cpu
>>>> workstation. I've set the MPI_DSM_DISTRIBUTE=yes and MPI_MEMMAP_OFF=1 in my
>>>> .bashrc. The job can ban successfully now but I found the memory keep
>>>> increasing when the job runing. Below is part of the output from the "free
>>>> -m -s 10" commond. Is this normal? Any suggestions? Thanks in advance!
>>>
>>>whether you have a memory leak or not is very hard to tell.
>>>please note, that if you are equilibrating a system, particularly
>>>and input fresh out of "solvate", then your neighbor lists may
>>>be growing for a while. you have to monitor for a long time, since
>>>most codes only increase their internal memory pools and never
>>>shrink them. at some point the memory use should level out.
>>>
>>>you also have to check what else is running on the machine.
>>>in any case, you still have plenty of memory left. so why worry?
>>>
>>>cheers,
>>> axel.
>>>
>>>>
>>>>
>>>> Mem: 61521 6114 55407 0 0 461
>>>> -/+ buffers/cache: 5652 55869
>>>> Swap: 9999 0 9999
>>>>
>>>> total used free shared buffers cached
>>>> Mem: 61521 6151 55369 0 0 462
>>>> -/+ buffers/cache: 5689 55831
>>>> Swap: 9999 0 9999
>>>>
>>>> total used free shared buffers cached
>>>> Mem: 61521 6184 55337 0 0 462
>>>> -/+ buffers/cache: 5721 55799
>>>> Swap: 9999 0 9999
>>>>
>>>> total used free shared buffers cached
>>>> Mem: 61521 6188 55333 0 0 462
>>>> -/+ buffers/cache: 5725 55795
>>>> Swap: 9999 0 9999
>>>>
>>>> total used free shared buffers cached
>>>> Mem: 61521 6191 55330 0 0 463
>>>> -/+ buffers/cache: 5728 55793
>>>> Swap: 9999 0 9999
>>>>
>>>> total used free shared buffers cached
>>>> Mem: 61521 6200 55321 0 0 463
>>>> -/+ buffers/cache: 5736 55784
>>>> Swap: 9999 0 9999
>>>>
>>>>
>>>
>>>
>>>
>>>--
>>>Dr. Axel Kohlmeyer akohlmey_at_gmail.com
>>>Institute for Computational Molecular Science
>>>College of Science and Technology
>>>Temple University, Philadelphia PA, USA.
>>>
>>
>
>
>No sig.
>

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