[1103] | 1 | #!/bin/ksh |
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[1046] | 2 | |
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[1059] | 3 | # mrun - script for running PALM jobs |
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| 4 | |
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[1046] | 5 | #--------------------------------------------------------------------------------# |
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| 6 | # This file is part of PALM. |
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| 7 | # |
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| 8 | # PALM is free software: you can redistribute it and/or modify it under the terms |
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| 9 | # of the GNU General Public License as published by the Free Software Foundation, |
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| 10 | # either version 3 of the License, or (at your option) any later version. |
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| 11 | # |
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| 12 | # PALM is distributed in the hope that it will be useful, but WITHOUT ANY |
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| 13 | # WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR |
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| 14 | # A PARTICULAR PURPOSE. See the GNU General Public License for more details. |
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| 15 | # |
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| 16 | # You should have received a copy of the GNU General Public License along with |
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| 17 | # PALM. If not, see <http://www.gnu.org/licenses/>. |
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| 18 | # |
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[1310] | 19 | # Copyright 1997-2014 Leibniz Universitaet Hannover |
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[1046] | 20 | #--------------------------------------------------------------------------------# |
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| 21 | # |
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| 22 | # Current revisions: |
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[1090] | 23 | # ------------------ |
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[1305] | 24 | # |
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[1492] | 25 | # |
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[1200] | 26 | # Former revisions: |
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| 27 | # ----------------- |
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| 28 | # $Id: mrun 1492 2014-11-12 08:13:59Z heinze $ |
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| 29 | # |
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[1492] | 30 | # 1491 2014-11-12 08:12:57Z heinze |
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| 31 | # correct setting of batch_job allowed for ibm-machines |
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| 32 | # |
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[1469] | 33 | # 1468 2014-09-24 14:06:57Z maronga |
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| 34 | # Typo removed (addres->address) |
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| 35 | # Bugfix: returning files to IMUK via ssh did not work for lccrayh and lcycrayb |
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| 36 | # Added support for restart runs (remote) for lcxe6 |
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| 37 | # |
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[1443] | 38 | # 1442 2014-07-28 07:09:10Z raasch |
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| 39 | # default queues for HLRN-III (lccrayb/lccrayh) defined |
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| 40 | # |
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[1423] | 41 | # 1422 2014-07-02 10:01:25Z kanani |
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| 42 | # automatic restarts enabled for lccrayb, |
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| 43 | # adjustment of path to compilervars.sh at IMUK (see automatic restarts) |
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| 44 | # |
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[1421] | 45 | # 1420 2014-06-10 06:24:14Z raasch |
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| 46 | # -j1 option added to aprung command for lccrayf (CSC) |
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| 47 | # |
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[1403] | 48 | # 1402 2014-05-09 14:25:13Z raasch |
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| 49 | # batch_job added to envpar-NAMELIST |
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| 50 | # |
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[1358] | 51 | # 1357 2014-04-11 15:02:03Z witha |
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| 52 | # adjustments for lccrayh (automatic restarts on lccrayh outside of IMUK are now |
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| 53 | # possible) |
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| 54 | # |
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[1328] | 55 | # 1320 2014-03-20 08:40:49Z raasch |
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| 56 | # check namelist file set false by default |
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| 57 | # |
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[1305] | 58 | # 1304 2014-03-12 10:29:42Z raasch |
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| 59 | # ulimit option changed from -Ss to -s |
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| 60 | # |
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| 61 | # bugfix: missing "fi" in r1289 |
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| 62 | # |
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[1290] | 63 | # 1289 2014-03-04 07:12:34Z raasch |
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| 64 | # comments translated to English |
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| 65 | # necriam-, fimm-, ibmy-, and sgi-specific code removed |
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| 66 | # export of variables for palm and interpret_config removed |
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| 67 | # |
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[1282] | 68 | # 1281 2014-02-01 07:55:49Z raasch |
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| 69 | # rsync-copy restricted to Cray machines, since command is unavailable on some |
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| 70 | # other systems |
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| 71 | # |
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[1280] | 72 | # 1279 2014-01-28 12:10:14Z raasch |
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| 73 | # tasks_per_node must not be an integral divisor of numprocs any more. This was done |
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| 74 | # in order to remove annoying restrictions concerning the number of processors which |
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| 75 | # appear on machines with larger nodes (e.g. containing 24 cores). Now without this |
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| 76 | # restriction, one of the nodes will be filled with less than the given number of |
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| 77 | # tasks per node. A respective warning is given. |
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| 78 | # |
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[1275] | 79 | # 1274 2014-01-09 13:14:54Z heinze |
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| 80 | # adjustments for lccrayh |
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| 81 | # |
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[1273] | 82 | # 1272 2014-01-08 10:19:32Z witha |
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| 83 | # small adjustment for lcflow |
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| 84 | # |
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[1271] | 85 | # 1270 2013-12-16 11:05:01Z fricke |
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| 86 | # call of combine_plot_fields adjusted for lccrayb/lccrayh |
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| 87 | # |
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[1256] | 88 | # 1255 2013-11-07 14:43:35Z raasch |
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| 89 | # further adjustments for lccrayb remote access |
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| 90 | # |
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[1242] | 91 | # 1241 2013-10-30 11:36:58Z heinze |
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| 92 | # Enable use of nudging input and input of large scale forcing from |
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| 93 | # external files |
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| 94 | # |
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[1230] | 95 | # 1229 2013-09-20 06:55:19Z raasch |
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| 96 | # further adjustments for lccrayb |
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| 97 | # |
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[1225] | 98 | # 1224 2013-09-16 07:27:23Z raasch |
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| 99 | # first adjustments for lccrayb |
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| 100 | # |
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[1211] | 101 | # 1210 2013-08-14 10:58:20Z raasch |
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| 102 | # fftw support added |
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| 103 | # |
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[1203] | 104 | # 1201 2013-07-10 16:17:59Z witha |
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| 105 | # adjustments for Forwind cluster (lcflow) |
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| 106 | # |
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[1200] | 107 | # 1199 2013-07-05 14:52:22Z raasch |
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[1199] | 108 | # adjustments for CSC Helsinki (lccrayf), |
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| 109 | # executables for batch jobs can be created in advance, in order to avoid calling |
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| 110 | # the compiler within the batch job (only works if batch jobs are submitted on |
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| 111 | # local host) |
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[1104] | 112 | # |
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[1191] | 113 | # 1190 2013-06-25 09:39:21Z heinze |
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| 114 | # enable use of automatic restarts for ibmh |
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[1185] | 115 | # use of cluster/express queue enabled (ibmh) |
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[1104] | 116 | # |
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[1125] | 117 | # 1124 2013-04-09 15:46:52Z raasch |
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| 118 | # variable "memory" is exported via typeset option -x, because otherwise an unknown |
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| 119 | # side effect may lead to data loss while getopts is reading the script-option arguments |
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| 120 | # |
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[1123] | 121 | # 1122 2013-04-09 08:37:16Z heinze |
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| 122 | # Bugfix: change type of variable last_char |
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| 123 | # |
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[1121] | 124 | # 1119 2013-04-05 15:11:19Z raasch |
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| 125 | # Bugfix for setting -T option for subjob |
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| 126 | # |
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[1109] | 127 | # 1108 2013-03-05 07:03:32Z raasch |
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| 128 | # bugfix for coupled runs on lckyut/lckyuh |
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| 129 | # |
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[1107] | 130 | # 1106 2013-03-04 05:31:38Z raasch |
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| 131 | # --stdin argument for mpiexec on lckyuh |
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| 132 | # -y and -Y settings output to header |
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| 133 | # |
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[1104] | 134 | # 1103 2013-02-20 02:15:53Z raasch |
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[1103] | 135 | # default script runs again under ksh, because of unsolved problems with read |
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| 136 | # from stdin: when bash script is called from a ksh, message "read error: 0: |
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| 137 | # Resource temporarily unavailable" appears and script does not stop, |
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| 138 | # further bash compatibility adjustments, |
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| 139 | # shebang line replaced by /bin/bash when running jobs on lckyuh; no restarts |
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| 140 | # on lckyuh, but mrun does not terminate and issues a warning instead |
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[1046] | 141 | # |
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[1102] | 142 | # 1101 2013-02-17 10:20:21Z raasch |
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| 143 | # script now running under bash instead of ksh, which required small adjustments |
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| 144 | # (output formatting with printf instead "typeset -L/-R", print replaced by echo, |
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| 145 | # read from stdin), |
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| 146 | # cross compilername on lckyuh compute nodes replaced by real compiler name |
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| 147 | # |
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[1100] | 148 | # 1099 2013-02-10 01:47:43Z raasch |
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| 149 | # adjustments for Kyushu-University computing center (lckyuh - hayaka) |
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| 150 | # and for Forwind cluster (lcflow) |
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| 151 | # small further adjustments for lckyut |
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| 152 | # |
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[1096] | 153 | # 1094 2013-02-03 01:52:12Z raasch |
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| 154 | # explicit ssh/scp port can be set in config file with environment variable |
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| 155 | # scp_port. This port is handled to all ssh/scp/batch_scp calls. |
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| 156 | # decalpha parts (yonsei) removed |
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| 157 | # |
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[1091] | 158 | # 2013-02-02 07:06:13Z raasch |
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[1099] | 159 | # adjustments for Kyushu-University computing center (lckyut - tatara) |
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[1091] | 160 | # |
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[1084] | 161 | # 1083 2013-01-04 10:22:09Z maronga |
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| 162 | # bugfix in parameter file check (read %cpp_options was missing) |
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| 163 | # |
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[1070] | 164 | # 1069 2012-11-28 16:18:43Z maronga |
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| 165 | # bugfix: coupling mode was always set to mpi2, typos removed |
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| 166 | # |
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[1059] | 167 | # 1058 2012-11-21 07:00:35Z raasch |
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| 168 | # Intel inspector (inspxe) is given the number of PEs instead of the number of |
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| 169 | # nodes |
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| 170 | # |
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[1047] | 171 | # 1046 2012-11-09 14:38:45Z maronga |
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| 172 | # code put under GPL (PALM 3.9) |
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| 173 | # |
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[1090] | 174 | # 21/03/94 - Siggi - first version finished |
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| 175 | # 03/03/94 - Siggi - script development started |
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| 176 | # |
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[1059] | 177 | #--------------------------------------------------------------------------------# |
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[1090] | 178 | # mrun - script for running PALM jobs |
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| 179 | #--------------------------------------------------------------------------------# |
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[1] | 180 | |
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[1047] | 181 | |
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[1] | 182 | |
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[1289] | 183 | # DECLARATION OF VARIABLES AND THEIR DEFUALT VALUES |
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[1] | 184 | |
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[1289] | 185 | set +o allexport # SUPPRESS EXPORT OF ALL VARIABLES, SINCE IN THE PAST THIS |
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| 186 | # LES TO PROBLEMS IN ROUTINES CALLED BY MRUN |
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| 187 | # (TOO MANY ARGUMENTS - PROBLEM) |
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| 188 | set +o noclobber # EXISTING FILES ARE ALLOWED TO BE OVERWRITTEN |
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[1] | 189 | |
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| 190 | AddFilenames="" |
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| 191 | additional_conditions="" |
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| 192 | add_source_path="" |
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| 193 | afname="" |
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| 194 | archive_save=true |
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| 195 | archive_system=none |
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[1320] | 196 | check_namelist_files=false |
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[920] | 197 | combine_plot_fields=true |
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[1] | 198 | compiler_name="" |
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| 199 | cond1="" |
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| 200 | cond2="" |
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| 201 | config_file=.mrun.config |
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[206] | 202 | coupled_dist="" |
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| 203 | coupled_mode="mpi1" |
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[1] | 204 | cpp_opts="" |
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[82] | 205 | cpp_options="" |
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[1] | 206 | cpumax=0 |
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| 207 | cpurest=0 |
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[1199] | 208 | create_executable_for_batch=false |
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[1] | 209 | delete_temporary_catalog=true |
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| 210 | do_batch=false |
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| 211 | do_compile=true |
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| 212 | do_remote=false |
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| 213 | do_stagein=true |
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| 214 | do_stageout=true |
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| 215 | do_trace=false |
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[352] | 216 | email_notification="none" |
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[1] | 217 | exclude="" |
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| 218 | executable="" |
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| 219 | execution_error=false |
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[1210] | 220 | fftw_inc="" |
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| 221 | fftw_lib="" |
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| 222 | fftw_support=false |
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[1289] | 223 | fname=test |
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[1] | 224 | fromhost="" |
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[78] | 225 | global_revision="" |
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[122] | 226 | group_number=none |
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[1] | 227 | host="" |
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| 228 | host_file="" |
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| 229 | hp="" |
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| 230 | ignore_archive_error=false |
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| 231 | input_list="" |
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| 232 | interpreted_config_file="" |
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[164] | 233 | job_catalog="~/job_queue" |
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[1] | 234 | job_on_file="" |
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| 235 | keep_data_from_previous_run=false |
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[183] | 236 | link_local_input=false |
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[149] | 237 | link_local_output=false |
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[1] | 238 | localhost_realname=$(hostname) |
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[260] | 239 | local_dvrserver_running=.FALSE. |
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[1] | 240 | locat=normal |
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| 241 | mainprog="" |
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| 242 | makefile="" |
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[759] | 243 | max_par_io_str="" |
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[1] | 244 | mc=$0 |
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| 245 | while [[ $(echo $mc | grep -c "/") != 0 ]] |
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| 246 | do |
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| 247 | mc=`echo $mc | cut -f2- -d"/"` |
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| 248 | done |
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[493] | 249 | module_calls="" |
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[1] | 250 | mrun_script_name=$mc |
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[82] | 251 | netcdf_inc="" |
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| 252 | netcdf_lib="" |
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[1] | 253 | netcdf_support=false |
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| 254 | node_usage=default |
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| 255 | numprocs="" |
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[206] | 256 | numprocs_atmos=0 |
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| 257 | numprocs_ocean=0 |
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[1] | 258 | OOPT="" |
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| 259 | openmp=false |
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| 260 | output_list="" |
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| 261 | package_list="" |
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| 262 | queue=none |
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| 263 | read_from_config="" |
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[5] | 264 | restart_run=false |
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[622] | 265 | if [[ `hostname` = rte10 ]] |
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[1] | 266 | then |
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[1468] | 267 | return_address=133.5.185.60 |
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| 268 | echo "+++ WARNING: fixed return_address = $return_address is used !!!!!" |
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[693] | 269 | elif [[ `hostname` = climate0 ]] |
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| 270 | then |
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[1468] | 271 | return_address=165.132.26.68 |
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| 272 | echo "+++ WARNING: fixed return_address = $return_address is used !!!!!" |
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[1021] | 273 | elif [[ `hostname` = urban00 ]] |
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| 274 | then |
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[1468] | 275 | return_address=147.46.30.151 |
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| 276 | echo "+++ WARNING: fixed return_address = $return_address is used !!!!!" |
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[622] | 277 | else |
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[1468] | 278 | return_address=$(nslookup `hostname` 2>&1 | grep "Address:" | tail -1 | awk '{print $2}') |
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[1] | 279 | fi |
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| 280 | return_password="" |
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| 281 | return_username=$LOGNAME |
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| 282 | remotecall=false |
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| 283 | remote_username="" |
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[102] | 284 | run_coupled_model=false |
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[1] | 285 | run_mode="" |
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[397] | 286 | store_on_archive_system=false |
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[1289] | 287 | dashes=" ----------------------------------------------------------------------------" |
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[1] | 288 | silent=false |
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| 289 | source_list="" |
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| 290 | source_path=SOURCE |
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| 291 | tasks_per_node="" |
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| 292 | threads_per_task=1 |
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| 293 | tmpcreate=false |
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| 294 | tmp_data_catalog="" |
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| 295 | transfer_problems=false |
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| 296 | usern=$LOGNAME |
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[377] | 297 | use_openmp=false |
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[1289] | 298 | version="MRUN 2.1 Rev$Rev: 1492 $" |
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[1] | 299 | working_directory=`pwd` |
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| 300 | TOPT="" |
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| 301 | XOPT="" |
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| 302 | zeit=$( date | cut -c 12-19 ) |
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| 303 | |
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[1124] | 304 | typeset -i iec=0 iic=0 iin=0 ioc=0 iout=0 stagein_anz=0 stageout_anz=0 |
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[1289] | 305 | typeset -x -i memory=0 # HAS TO BE EXPORTED HERE, OTHERWISE AN UNKNOWN SIDE |
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| 306 | # SIDE EFFECT MAY CAUSE DATA LOSS WHEN GETOPTS IS READING THE |
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| 307 | # SCRIPT-OPTION ARGUMENTS |
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[1279] | 308 | typeset -i cputime i ii iia iii iio icycle inode ival jobges jobsek last_char_int maxcycle minuten nodes pes remaining_pes sekunden tp1 |
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[1] | 309 | |
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| 310 | |
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| 311 | |
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[1289] | 312 | # ERROR HANDLING IN CASE OF EXIT |
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[83] | 313 | trap 'rm -rf $working_directory/tmp_mrun |
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[1289] | 314 | if [[ $locat != normal && $locat != control_c ]] |
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[1] | 315 | then |
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| 316 | |
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[1289] | 317 | # CARRY OUT ERROR-COMMANDS GIVEN IN THE CONFIGURATION FILE (EC:) |
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[1] | 318 | (( i = 0 )) |
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| 319 | while (( i < iec )) |
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| 320 | do |
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| 321 | (( i = i + 1 )) |
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| 322 | printf "\n *** Execution of ERROR-command:\n" |
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| 323 | printf " >>> ${err_command[$i]}\n" |
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| 324 | eval ${err_command[$i]} |
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| 325 | done |
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[1101] | 326 | if [[ -n $interpreted_config_file ]] |
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| 327 | then |
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[1] | 328 | rm -rf $interpreted_config_file |
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| 329 | fi |
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[1101] | 330 | if [[ -n .mrun_environment ]] |
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| 331 | then |
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[71] | 332 | rm -rf .mrun_environment |
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| 333 | fi |
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[1] | 334 | if [[ $tmpcreate = true ]] |
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| 335 | then |
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| 336 | printf "\n *** Contents of \"$TEMPDIR\":\n" |
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| 337 | ls -al; cd |
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| 338 | [[ $delete_temporary_catalog = true ]] && rm -rf $TEMPDIR |
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| 339 | fi |
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[260] | 340 | if [[ "$dvrserver_id" != "" ]] |
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| 341 | then |
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| 342 | echo "+++ killing dvrserver_id=$dvrserver_id" |
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| 343 | kill $dvrserver_id |
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| 344 | fi |
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[1] | 345 | if [[ -f ~/job_queue/JOBINFO.$QSUB_REQID ]] |
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| 346 | then |
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| 347 | rm -rf ~/job_queue/JOBINFO.$QSUB_REQID |
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| 348 | fi |
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| 349 | printf "\n\n+++ MRUN killed \n\n" |
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| 350 | elif [[ $locat != control_c ]] |
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| 351 | then |
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| 352 | printf "\n\n --> all actions finished\n\n" |
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| 353 | printf " Bye, bye $usern !!\n\n" |
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| 354 | fi' exit |
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| 355 | |
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| 356 | |
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[1289] | 357 | # ACTIONS IN CASE OF TERMINAL-BREAK (CONTROL-C): |
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[83] | 358 | trap 'rm -rf $working_directory/tmp_mrun |
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[807] | 359 | rm -rf $working_directory/tmp_check_namelist_files |
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[69] | 360 | [[ $tmpcreate = true ]] && (cd; rm -rf $TEMPDIR) |
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[1] | 361 | if [[ -f ~/job_queue/JOBINFO.$QSUB_REQID ]] |
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| 362 | then |
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| 363 | rm -rf ~/job_queue/JOBINFO.$QSUB_REQID |
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| 364 | fi |
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[260] | 365 | if [[ "$dvrserver_id" != "" ]] |
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| 366 | then |
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| 367 | echo "+++ killing dvrserver_id=$dvrserver_id" |
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| 368 | kill $dvrserver_id |
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| 369 | fi |
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[1] | 370 | printf "\n+++ MRUN killed by \"^C\" \n\n" |
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| 371 | locat=control_c |
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| 372 | exit |
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| 373 | ' 2 |
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| 374 | |
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| 375 | |
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[22] | 376 | # CHECK IF THE PATH FOR THE PALM BINARIES (SCRIPTS+UTILITY-PROGRAMS) HAS |
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| 377 | # BEEN SET |
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| 378 | if [[ "$PALM_BIN" = "" ]] |
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| 379 | then |
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| 380 | printf "\n +++ environment variable PALM_BIN has not been set" |
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| 381 | printf "\n please set it to the directory where the PALM scripts are located" |
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| 382 | locat=palm_bin; exit |
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| 383 | fi |
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[180] | 384 | export PATH=$PALM_BIN:$PATH |
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[22] | 385 | |
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| 386 | |
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[1] | 387 | |
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[1289] | 388 | # READ SHELLSCRIPT-OPTIONS AND REBUILD THE MRUN-COMMAND STRING (MC), |
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| 389 | # WHICH WILL BE USED TO START RESTART-JOBS |
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[920] | 390 | while getopts :a:AbBc:Cd:D:Fg:G:h:H:i:IkK:m:M:n:o:O:p:P:q:r:R:s:St:T:u:U:vw:xX:yY:zZ option |
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[1] | 391 | do |
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| 392 | case $option in |
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| 393 | (a) afname=$OPTARG;; |
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[397] | 394 | (A) store_on_archive_system=true; mc="$mc -A";; |
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[1] | 395 | (b) do_batch=true; mc="$mc -b";; |
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| 396 | (B) delete_temporary_catalog=false; mc="$mc -B";; |
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| 397 | (c) config_file=$OPTARG; mc="$mc -c$OPTARG";; |
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[5] | 398 | (C) restart_run=true; mc="$mc -C";; |
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[1] | 399 | (d) fname=$OPTARG; mc="$mc -d$OPTARG";; |
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[210] | 400 | (D) cpp_opts="$cpp_opts $OPTARG"; mc="$mc -D'$OPTARG'";; |
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[79] | 401 | (F) job_on_file="-D"; mc="$mc -F";; |
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[122] | 402 | (g) group_number=$OPTARG; mc="$mc -g$OPTARG";; |
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[78] | 403 | (G) global_revision=$OPTARG; mc="$mc -G'$OPTARG'";; |
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[1] | 404 | (h) host=$OPTARG; mc="$mc -h$OPTARG";; |
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| 405 | (H) fromhost=$OPTARG; mc="$mc -H$OPTARG";; |
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| 406 | (i) input_list=$OPTARG; mc="$mc -i'$OPTARG'";; |
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| 407 | (I) ignore_archive_error=true; mc="$mc -I";; |
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| 408 | (k) keep_data_from_previous_run=true; mc="$mc -k";; |
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[210] | 409 | (K) additional_conditions="$OPTARG"; mc="$mc -K'$OPTARG'";; |
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[1] | 410 | (m) memory=$OPTARG; mc="$mc -m$OPTARG";; |
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| 411 | (M) makefile=$OPTARG; mc="$mc -M$OPTARG";; |
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| 412 | (n) node_usage=$OPTARG; mc="$mc -n$OPTARG";; |
---|
| 413 | (o) output_list=$OPTARG; mc="$mc -o'$OPTARG'";; |
---|
[622] | 414 | (O) use_openmp=true; threads_per_task=$OPTARG; mc="$mc -O$OPTARG";; |
---|
[1] | 415 | (p) package_list=$OPTARG; mc="$mc -p'$OPTARG'";; |
---|
| 416 | (P) return_password=$OPTARG; mc="$mc -P$OPTARG";; |
---|
| 417 | (q) queue=$OPTARG; mc="$mc -q$OPTARG";; |
---|
| 418 | (r) run_mode=$OPTARG; mc="$mc -r'$OPTARG'";; |
---|
[1468] | 419 | (R) remotecall=true;return_address=$OPTARG; mc="$mc -R$OPTARG";; |
---|
[1] | 420 | (s) source_list=$OPTARG; mc="$mc -s'$OPTARG'";; |
---|
| 421 | (S) read_from_config=false; mc="$mc -S";; |
---|
| 422 | (t) cpumax=$OPTARG; mc="$mc -t$OPTARG";; |
---|
[759] | 423 | (T) mrun_tasks_per_node=$OPTARG; mc="$mc -T$OPTARG";; |
---|
[1] | 424 | (u) remote_username=$OPTARG; mc="$mc -u$OPTARG";; |
---|
| 425 | (U) return_username=$OPTARG; mc="$mc -U$OPTARG";; |
---|
| 426 | (v) silent=true; mc="$mc -v";; |
---|
[759] | 427 | (w) max_par_io_str=$OPTARG; mc="$mc -w$OPTARG";; |
---|
[1] | 428 | (x) do_trace=true;set -x; mc="$mc -x";; |
---|
| 429 | (X) numprocs=$OPTARG; mc="$mc -X$OPTARG";; |
---|
[291] | 430 | (y) ocean_file_appendix=true; mc="$mc -y";; |
---|
[206] | 431 | (Y) run_coupled_model=true; coupled_dist=$OPTARG; mc="$mc -Y'$OPTARG'";; |
---|
[807] | 432 | (z) check_namelist_files=false; mc="$mc -z";; |
---|
[920] | 433 | (Z) combine_plot_fields=false; mc="$mc -Z";; |
---|
[1] | 434 | (\?) printf "\n +++ unknown option $OPTARG \n" |
---|
| 435 | printf "\n --> type \"$0 ?\" for available options \n" |
---|
| 436 | locat=parameter;exit;; |
---|
| 437 | esac |
---|
| 438 | done |
---|
| 439 | |
---|
| 440 | |
---|
[1289] | 441 | # SKIP GIVEN OPTIONS TO READ POSITIONAL PARAMETER, IF GIVEN |
---|
| 442 | # CURRENTLY ONLY PARAMETER ? (TO OUTPUT A SHORT COMMAND INFO) IS ALLOWED |
---|
[1101] | 443 | (( to_shift = $OPTIND - 1 )) |
---|
| 444 | shift $to_shift |
---|
[1] | 445 | |
---|
[1289] | 446 | # PRINT SHORT DESCRIPTION OF MRUN OPTIONS |
---|
[1] | 447 | if [[ "$1" = "?" ]] |
---|
| 448 | then |
---|
| 449 | (printf "\n *** mrun can be called as follows:\n" |
---|
[920] | 450 | printf "\n $mrun_script_name -b -c.. -d.. -D.. -f.. -F -h.. -i.. -I -K.. -m.. -o.. -p.. -r.. -R -s.. -t.. -T.. -v -x -X.. -y -Y.. -z -Z <modus> \n" |
---|
[1] | 451 | printf "\n Description of available options:\n" |
---|
| 452 | printf "\n Option Description Default-Value" |
---|
| 453 | printf "\n -a base name of input files equiv. -d" |
---|
[400] | 454 | printf "\n -A archiving when using file-attribute fl" |
---|
[1] | 455 | printf "\n -b batch-job on local machine ---" |
---|
| 456 | printf "\n -B do not delete temporary directory at end ---" |
---|
| 457 | printf "\n -c configuration file .mrun.config" |
---|
| 458 | printf "\n -d base name of files attached to program test" |
---|
| 459 | printf "\n -D preprocessor(cpp)-directives \"\" " |
---|
| 460 | printf "\n -F create remote job file only ---" |
---|
| 461 | printf "\n -h execution host $localhost_realname" |
---|
| 462 | printf "\n -i INPUT control list \"\" " |
---|
| 463 | printf "\n -I archiving errors of previous batch-jobs" |
---|
| 464 | printf "\n will be ignored" |
---|
| 465 | printf "\n -k keep data from previous run" |
---|
| 466 | printf "\n -K additional conditions for controling" |
---|
| 467 | printf "\n usage of conditional code and" |
---|
| 468 | printf "\n env-variables in configuration file \"\" " |
---|
| 469 | printf "\n -m memory demand in MB (batch-jobs) 0 MB" |
---|
| 470 | printf "\n -M Makefile name Makefile" |
---|
| 471 | printf "\n -n node usage (shared/not_shared) depending on -h" |
---|
| 472 | printf "\n -o OUTPUT control list \"\" " |
---|
[1304] | 473 | printf "\n -O threads per openMP task ---" |
---|
[1] | 474 | printf "\n -p software package list \"\" " |
---|
| 475 | printf "\n -q queue \"$queue\" " |
---|
| 476 | printf "\n -r run control list (combines -i -o) \"\" " |
---|
| 477 | printf "\n -s filenames of routines to be compiled \"\" " |
---|
| 478 | printf "\n must end with .f, .f90, .F, or .c !" |
---|
| 479 | printf "\n use \"..\" for more than one file and wildcards" |
---|
[837] | 480 | printf "\n -s LM compiles all locally modified files" |
---|
[1] | 481 | printf "\n -S config file interpreted by shellscript ---" |
---|
| 482 | printf "\n -t allowed cpu-time in seconds (batch) 0" |
---|
| 483 | printf "\n -T tasks per node depending on -h" |
---|
| 484 | printf "\n -u username on remote machine \"\" " |
---|
| 485 | printf "\n -v no prompt for confirmation ---" |
---|
[759] | 486 | printf "\n -w maximum parallel io streams as given by -X" |
---|
[1] | 487 | printf "\n -x tracing of mrun for debug purposes ---" |
---|
| 488 | printf "\n -X # of processors (on parallel machines) 1" |
---|
[291] | 489 | printf "\n -y add appendix \"_O\" to all local output" |
---|
| 490 | printf "\n files (ocean precursor runs followed by" |
---|
| 491 | printf "\n coupled atmosphere-ocean runs) ---" |
---|
[206] | 492 | printf "\n -Y run coupled model, \"#1 #2\" with" |
---|
| 493 | printf "\n #1 atmosphere and #2 ocean processors \"#/2 #/2\" depending on -X" |
---|
[920] | 494 | printf "\n -z disable a priori parameter file check ---" |
---|
| 495 | printf "\n -Z skip combine_plot_fields at the end of " |
---|
| 496 | printf "\n the simulation ---" |
---|
[1] | 497 | printf "\n " |
---|
| 498 | printf "\n Possible values of positional parameter <modus>:" |
---|
| 499 | printf "\n \"?\" - this outline \n\n") | more |
---|
| 500 | exit |
---|
| 501 | elif [[ "$1" != "" ]] |
---|
| 502 | then |
---|
| 503 | printf "\n +++ positional parameter $1 unknown \n" |
---|
| 504 | locat=parameter; exit |
---|
| 505 | fi |
---|
| 506 | |
---|
| 507 | |
---|
| 508 | |
---|
[1289] | 509 | # SHORT STARTING MESSAGE |
---|
[1] | 510 | printf "\n*** $version " |
---|
| 511 | printf "\n will be executed. Please wait ..." |
---|
| 512 | |
---|
| 513 | |
---|
[82] | 514 | |
---|
[1289] | 515 | # CHECK, IF CONFIGURATION FILE EXISTS |
---|
[82] | 516 | if [[ ! -f $config_file ]] |
---|
| 517 | then |
---|
| 518 | printf "\n\n +++ configuration file: " |
---|
| 519 | printf "\n $config_file" |
---|
| 520 | printf "\n does not exist" |
---|
| 521 | locat=connect; exit |
---|
| 522 | fi |
---|
| 523 | |
---|
| 524 | |
---|
[1289] | 525 | # DETERMINE THE HOST-IDENTIFIER (localhost) FROM THE CONFIGURATION FILE |
---|
[82] | 526 | line="" |
---|
| 527 | grep "%host_identifier" $config_file > tmp_mrun |
---|
| 528 | while read line |
---|
| 529 | do |
---|
[206] | 530 | if [[ "$line" != "" && $(echo $line | cut -c1) != "#" ]] |
---|
[82] | 531 | then |
---|
| 532 | HOSTNAME=`echo $line | cut -d" " -s -f2` |
---|
| 533 | host_identifier=`echo $line | cut -d" " -s -f3` |
---|
[83] | 534 | if [[ $localhost_realname = $HOSTNAME ]] |
---|
[82] | 535 | then |
---|
| 536 | localhost=$host_identifier |
---|
| 537 | break |
---|
| 538 | fi |
---|
| 539 | fi |
---|
| 540 | done < tmp_mrun |
---|
| 541 | |
---|
| 542 | if [[ "$localhost" = "" ]] |
---|
| 543 | then |
---|
| 544 | printf "\n\n +++ no host identifier found in configuration file \"$config_file\"" |
---|
| 545 | printf "\n for local host \"$localhost_realname\"." |
---|
| 546 | printf "\n Please add line" |
---|
| 547 | printf "\n \"\%host_identifier $localhost_realname <identifier>\"" |
---|
| 548 | printf "\n to the configuration file." |
---|
| 549 | locat=localhost; exit |
---|
| 550 | fi |
---|
| 551 | |
---|
| 552 | |
---|
[1289] | 553 | # SET HOST-SPECIFIC VARIABLES |
---|
[82] | 554 | case $localhost_realname in |
---|
[397] | 555 | (r1*|r2*|h01*|b01*) archive_system=tivoli;; |
---|
[82] | 556 | (cs*) archive_system=ut;; |
---|
| 557 | esac |
---|
| 558 | |
---|
| 559 | |
---|
[1289] | 560 | # ??? THIS SHOULD BE DECRIBED IN THE MRUN DOCUMENTATION ??? |
---|
| 561 | # SET BASENAME OF THE INPUT-FILES TO THE GENERAL BASENAME (GIVEN BY OPTION -d), |
---|
| 562 | # IF IT HAS NOT BEEN SET BY THE USER DIFFERENTLY (USING OPTION -a) |
---|
[1] | 563 | [[ "$afname" = "" ]] && afname=$fname |
---|
| 564 | |
---|
| 565 | |
---|
[1289] | 566 | # ADD RUN-FILE ACTIVATION STRINGS (GIVEN BY OPTION -r) TO THE |
---|
| 567 | # RESPECTIVE LISTS FOR ACTIVATING THE INPUT/OUTPUT FILE CONNECTION |
---|
| 568 | # STATEMENTS IN THE CONFIGURATION FILE |
---|
[1] | 569 | if [[ "$run_mode" != "" ]] |
---|
| 570 | then |
---|
| 571 | input_list="$input_list $run_mode" |
---|
| 572 | output_list="$output_list $run_mode" |
---|
| 573 | fi |
---|
| 574 | |
---|
| 575 | |
---|
[1289] | 576 | # ??? is this (and the respective option -H) really required ??? |
---|
| 577 | # STORE HOSTNAME, FROM WHICH THE JOB IS STARTED, |
---|
| 578 | # BUT ONLY IF IT HASN'T BEEN ALREADY SET BY OPTION -H |
---|
| 579 | # (MRUN IS AUTOMATICALLY SETTING THIS OPTION IN THE MRUN-CALLS WITHIN |
---|
| 580 | # THOSE BATCH-JOBS, WHICH ARE CREATED BY MRUN ITSELF) |
---|
[1] | 581 | if [[ "$fromhost" = "" ]] |
---|
| 582 | then |
---|
| 583 | fromhost=$localhost |
---|
| 584 | fi |
---|
| 585 | |
---|
| 586 | |
---|
[1289] | 587 | # CHECK, IF EXECUTION SHALL TO BE DONE ON THE REMOTE-MACHINE. |
---|
| 588 | # VALUE OF do_remote IS IMPORTANT FOR THE FILE CONNECTIONS. |
---|
| 589 | # IN CASE OF EXECUTION ON A REMOTE-MACHINE, A BATCH-JOB HAS |
---|
| 590 | # TO BE SUBMITTED (I.E. do_bacth=true) |
---|
[1] | 591 | if [[ -n $host && "$host" != $localhost ]] |
---|
| 592 | then |
---|
| 593 | do_batch=true |
---|
| 594 | do_remote=true |
---|
| 595 | case $host in |
---|
[1289] | 596 | (ibm|ibmh|ibmkisti|ibmku|ibms|nech|lccrayb|lccrayh|lccrayf|lcflow|lckyoto|unics|lcxe6|lcxt5m|lck|lckiaps|lckordi|lckyuh|lckyut|lcsb) true;; |
---|
[1] | 597 | (*) printf "\n" |
---|
[83] | 598 | printf "\n +++ sorry: execution of batch jobs on remote host \"$host\"" |
---|
| 599 | printf "\n is not available" |
---|
[1] | 600 | locat=nqs; (( iec = 0 )); exit;; |
---|
| 601 | esac |
---|
| 602 | else |
---|
| 603 | host=$localhost |
---|
| 604 | fi |
---|
| 605 | |
---|
| 606 | |
---|
[1289] | 607 | # EVALUATE ADDITIONAL CONDITIONS GIVEN BY OPTION -K |
---|
[1] | 608 | if [[ -n $additional_conditions ]] |
---|
| 609 | then |
---|
[69] | 610 | cond1=`echo $additional_conditions | cut -d" " -f1` |
---|
| 611 | cond2=`echo $additional_conditions | cut -d" " -s -f2` |
---|
| 612 | dummy=`echo $additional_conditions | cut -d" " -s -f3` |
---|
[1] | 613 | if [[ -n $dummy ]] |
---|
| 614 | then |
---|
| 615 | printf "\n +++ more than 2 additional conditions given for Option \"-K\"" |
---|
| 616 | locat=options; exit |
---|
| 617 | fi |
---|
[503] | 618 | block=_$cond1 |
---|
| 619 | [[ -n $cond2 ]] && block=${block}_$cond2 |
---|
[1] | 620 | fi |
---|
| 621 | |
---|
| 622 | |
---|
[1289] | 623 | # EVALUATE MODEL COUPLING FEATURES (OPTION -Y) AND DETERMINE coupled_mode |
---|
[206] | 624 | if [[ $run_coupled_model = true ]] |
---|
| 625 | then |
---|
| 626 | |
---|
[1289] | 627 | numprocs_atmos=`echo $coupled_dist | cut -d" " -s -f1` |
---|
| 628 | numprocs_ocean=`echo $coupled_dist | cut -d" " -s -f2` |
---|
| 629 | |
---|
| 630 | if (( $numprocs_ocean + $numprocs_atmos != $numprocs )) |
---|
[206] | 631 | then |
---|
| 632 | |
---|
[1289] | 633 | printf "\n +++ number of processors does not fit to specification by \"-Y\"." |
---|
| 634 | printf "\n PEs (total) : $numprocs" |
---|
| 635 | printf "\n PEs (atmosphere): $numprocs_atmos" |
---|
| 636 | printf "\n PEs (ocean) : $numprocs_ocean" |
---|
| 637 | locat=coupling; exit |
---|
[206] | 638 | |
---|
[1289] | 639 | fi |
---|
[206] | 640 | |
---|
| 641 | |
---|
| 642 | # GET coupled_mode FROM THE CONFIG FILE |
---|
| 643 | line="" |
---|
| 644 | grep "%cpp_options.*-D__mpi2.*$host" $config_file > tmp_mrun |
---|
| 645 | while read line |
---|
| 646 | do |
---|
[1069] | 647 | if [[ "$line" != "" && $(echo $line | cut -c1) != "#" && $(echo $line | cut -d" " -s -f4) = $cond1 && $(echo $line | cut -d" " -s -f4) = $cond2 ]] |
---|
[206] | 648 | then |
---|
| 649 | coupled_mode="mpi2" |
---|
| 650 | fi |
---|
| 651 | done < tmp_mrun |
---|
| 652 | |
---|
| 653 | fi |
---|
| 654 | |
---|
| 655 | |
---|
[1289] | 656 | # CHECK, IF FILE-ARCHIVING HAS FAILED IN PREVIOUS JOB (OF A JOB-CHAIN) |
---|
[1] | 657 | if [[ -f ~/job_queue/ARCHIVE_ERROR_$fname ]] |
---|
| 658 | then |
---|
| 659 | if [[ $ignore_archive_error = false ]] |
---|
| 660 | then |
---|
| 661 | printf "\n +++ data archiving of previous run failed" |
---|
| 662 | printf "\n see directory \~/job_queue on remote machine" |
---|
| 663 | locat=archive; exit |
---|
| 664 | else |
---|
| 665 | printf "\n +++ warning: data archiving in a previous run failed" |
---|
| 666 | printf "\n MRUN continues, trying to get backup copy" |
---|
| 667 | fi |
---|
| 668 | fi |
---|
| 669 | |
---|
| 670 | |
---|
[1289] | 671 | # SAVE VALUES OF MRUN-OPTIONS SICHERN IN ORDER TO OVERWRITE |
---|
| 672 | # THOSE VALUES GIVEN IN THE CONFIGURATION-FILE |
---|
[1099] | 673 | mrun_memory=$memory |
---|
| 674 | mrun_group_number=$group_number |
---|
| 675 | mrun_cpumax=$cpumax |
---|
| 676 | mrun_numprocs=$numprocs |
---|
[1] | 677 | |
---|
[1099] | 678 | |
---|
[1289] | 679 | # READ AND EVALUATE THE CONFIGURATION-FILE FROM WITHIN THIS SHELLSCRIPT |
---|
[1468] | 680 | # (OPTION -S). THE DEFAULT IS USING THE ROUTINE <<<< |
---|
[1] | 681 | if [[ "$read_from_config" = false ]] |
---|
| 682 | then |
---|
| 683 | |
---|
| 684 | [[ $silent = false ]] && printf "\n Reading the configuration file... " |
---|
[1289] | 685 | |
---|
| 686 | # READ THE CONFIGURATION FILE LINE BY LINE |
---|
[1] | 687 | while read zeile |
---|
| 688 | do |
---|
| 689 | [[ $silent = false ]] && printf "." |
---|
| 690 | |
---|
| 691 | |
---|
[1289] | 692 | # FIRST REPLACE ENVIRONMENT-VARIABLES BY THEIR RESPECTIVE VALUES |
---|
[1] | 693 | eval zeile=\"$zeile\" |
---|
| 694 | |
---|
| 695 | |
---|
[1289] | 696 | # INTERPRET THE LINE |
---|
[21] | 697 | if [[ "$(echo $zeile)" = "" ]] |
---|
[1] | 698 | then |
---|
[1289] | 699 | # EMPTY LINE, NO ACTION |
---|
[21] | 700 | continue |
---|
[1] | 701 | |
---|
[21] | 702 | elif [[ "$(echo $zeile | cut -c1)" = "#" ]] |
---|
| 703 | then |
---|
| 704 | |
---|
[1289] | 705 | # LINE IS A COMMENT LINE |
---|
[1] | 706 | true |
---|
| 707 | |
---|
| 708 | elif [[ "$(echo $zeile | cut -c1)" = "%" ]] |
---|
| 709 | then |
---|
| 710 | |
---|
[1289] | 711 | # LINE DEFINES AN ENVIRONMENT-VARIABLE |
---|
[1] | 712 | zeile=$(echo $zeile | cut -c2-) |
---|
[69] | 713 | var=`echo $zeile | cut -d" " -f1` |
---|
| 714 | value=`echo $zeile | cut -d" " -s -f2` |
---|
| 715 | for_host=`echo $zeile | cut -d" " -s -f3` |
---|
| 716 | for_cond1=`echo $zeile | cut -d" " -s -f4` |
---|
| 717 | for_cond2=`echo $zeile | cut -d" " -s -f5` |
---|
[1] | 718 | |
---|
| 719 | if [[ "$for_host" = "" || ( "$for_host" = $host && "$for_cond1" = "$cond1" && "$for_cond2" = "$cond2" ) || $(echo "$input_list$output_list"|grep -c "$for_host") != 0 ]] |
---|
| 720 | then |
---|
| 721 | |
---|
[1289] | 722 | # REPLACE ":" BY " " IN COMPILER- CPP- OR LINKER-OPTIONS, |
---|
| 723 | # "::" IS REPLACED BY ":". |
---|
[1] | 724 | value=`echo $value | sed 's/::/%DUM%/g' | sed 's/:/ /g' | sed 's/%DUM%/:/g'` |
---|
| 725 | |
---|
| 726 | |
---|
[1289] | 727 | # VALUE FROM THE CONFIGURATION-FILE IS ASSIGNED TO THE |
---|
| 728 | # ENVIRONMENT-VARIABLE, BUT ONLY IF NO VALUE HAS BEEN ALREADY |
---|
| 729 | # ASSIGNED WITHIN THIS SCRIPT (E.G. BY SCRIPT-OPTIONS). |
---|
| 730 | # NON-ASSIGNED VARIABLES HAVE VALUE "" OR 0 (IN CASE OF INTEGER). |
---|
| 731 | # HENCE THE GENERAL RULE IS: SCRIPT-OPTION OVERWRITES THE |
---|
| 732 | # CONFIGURATION-FILE. |
---|
[1] | 733 | if [[ "$(eval echo \$$var)" = "" || "$(eval echo \$$var)" = "0" ]] |
---|
| 734 | then |
---|
| 735 | eval $var=\$value |
---|
| 736 | |
---|
[1289] | 737 | # TERMINAL OUTPUT OF ENVIRONMENT-VARIABLES, IF TRACEBACK IS SWITCHED on |
---|
[1] | 738 | if [[ $do_trace = true ]] |
---|
| 739 | then |
---|
| 740 | printf "\n*** ENVIRONMENT-VARIABLE $var = $value" |
---|
| 741 | fi |
---|
| 742 | fi |
---|
| 743 | |
---|
[1289] | 744 | # IF AN ENVIRONMENT-VARIABLE DETERMINES THE HOST, THEN EVALUATE IT IMMEDIATELY: |
---|
| 745 | # VALUE OF do-remote IS REQUIRED FOR THE FILE CONNECTIONS (COPY OF I/O FILES). |
---|
| 746 | # IF EXECUTION IS SCHEDULED FOR A REMOTE-MASCHINE, A BATCH-JOB |
---|
| 747 | # MUST HAVE TO BE STARTED |
---|
[1] | 748 | if [[ $var = host ]] |
---|
| 749 | then |
---|
| 750 | if [[ -n $host && "$host" != $localhost ]] |
---|
| 751 | then |
---|
| 752 | do_batch=true |
---|
| 753 | do_remote=true |
---|
| 754 | case $host in |
---|
[1289] | 755 | (ibm|ibmh|ibmkisti|ibmku|ibms|lccrayb|lccrayh|lccrayf|lcflow|lckyoto|nech|unics|lcxe6|lcxt5m|lck|lckiaps|lckordi|lckyuh|lckyut|lcsb) true;; |
---|
[83] | 756 | (*) printf "\n +++ sorry: execution of batch jobs on remote host \"$host\"" |
---|
| 757 | printf "\n is not available" |
---|
[1] | 758 | locat=nqs; exit;; |
---|
| 759 | esac |
---|
| 760 | else |
---|
| 761 | host=$localhost |
---|
| 762 | fi |
---|
| 763 | fi |
---|
| 764 | |
---|
[1289] | 765 | # USER-DEFINED ENVIRONMENT VARIABLES MUST BE EXPORTED, |
---|
| 766 | # BECAUSE THEY MAY BE REQUIRED IN OTHER SCRIPTS CALLED |
---|
| 767 | # BY MRUN (E.G. subjob) |
---|
[1] | 768 | export $var |
---|
| 769 | fi |
---|
| 770 | |
---|
| 771 | |
---|
| 772 | |
---|
| 773 | |
---|
| 774 | elif [[ "$(echo $zeile | cut -c1-3)" = "EC:" ]] |
---|
| 775 | then |
---|
| 776 | |
---|
[1289] | 777 | # LINE DEFINES ERROR-COMMAND |
---|
[1] | 778 | (( iec = iec + 1 )) |
---|
| 779 | zeile=$(echo $zeile | cut -c4-) |
---|
| 780 | err_command[$iec]="$zeile" |
---|
| 781 | |
---|
| 782 | elif [[ "$(echo $zeile | cut -c1-3)" = "IC:" ]] |
---|
| 783 | then |
---|
| 784 | |
---|
[1289] | 785 | # LINE DEFINES INPUT-COMMAND |
---|
[1] | 786 | (( iic = iic + 1 )) |
---|
| 787 | zeile=$(echo $zeile | cut -c4-) |
---|
| 788 | in_command[$iic]="$zeile" |
---|
| 789 | |
---|
| 790 | elif [[ "$(echo $zeile | cut -c1-3)" = "OC:" ]] |
---|
| 791 | then |
---|
| 792 | |
---|
[1289] | 793 | # LINE DEFINES OUTPUT-COMMAND |
---|
[1] | 794 | (( ioc = ioc + 1 )) |
---|
| 795 | zeile=$(echo $zeile | cut -c4-) |
---|
| 796 | out_command[$ioc]="$zeile" |
---|
| 797 | |
---|
| 798 | else |
---|
| 799 | |
---|
[1289] | 800 | # LINE DEFINES FILE CONNECTION. READ THE FILE ATTRIBUTES. |
---|
| 801 | # s2a: in/out - field |
---|
| 802 | # s2b: loc - field (optional) |
---|
| 803 | # s2c: tr/ar - field (optional) |
---|
[69] | 804 | s1=`echo $zeile | cut -d" " -f1` |
---|
| 805 | s2=`echo $zeile | cut -d" " -s -f2` |
---|
[1] | 806 | s2a=$(echo $s2 | cut -d":" -f1) |
---|
| 807 | if [[ $(echo $s2 | grep -c ":") = 0 ]] |
---|
| 808 | then |
---|
| 809 | s2b="" |
---|
| 810 | s2c="" |
---|
| 811 | else |
---|
[69] | 812 | s2b=`echo $s2 | cut -d":" -f2 | sed 's/:/ /g'` |
---|
| 813 | s2c=`echo $s2 | cut -d":" -s -f3 | sed 's/:/ /g'` |
---|
[1] | 814 | fi |
---|
[69] | 815 | s3=`echo $zeile | cut -d" " -f3` |
---|
| 816 | s4=`echo $zeile | cut -d" " -s -f4` |
---|
| 817 | s5=`echo $zeile | cut -d" " -s -f5` |
---|
| 818 | s6=`echo $zeile | cut -d" " -s -f6` |
---|
[1] | 819 | |
---|
| 820 | |
---|
[1289] | 821 | # STORE FILE CONNECTION, IF ACTIVATED BY ACTIVATION-STRING FROM |
---|
| 822 | # INPUT- OR OUTPUT-LIST. |
---|
| 823 | # VARIABLE S3 MAY CONTAIN A LIST OF ACTIVATION STRINGS (FIELD-SEPERATOR ":"). |
---|
| 824 | # IF EXECUTION IS SCHEDULED FOR A REMOTE-MACHINE AND THE FILE IS ONLY |
---|
| 825 | # LOCALLY REQUIRED ON THAT MACHINE (I.E. s2b = loc), THE FILE CONNECTION |
---|
| 826 | # IS NOT CHECKED AND STORED. |
---|
[1] | 827 | IFSALT="$IFS"; IFS="$IFS:" |
---|
| 828 | if [[ "$s2a" = in && ! ( $do_remote = true && ( "$s2b" = loc || "$s2b" = locopt ) ) ]] |
---|
| 829 | then |
---|
| 830 | found=false |
---|
| 831 | for actual in $input_list |
---|
| 832 | do |
---|
| 833 | for formal in $s3 |
---|
| 834 | do |
---|
| 835 | [[ $actual = $formal || "$formal" = "-" ]] && found=true |
---|
| 836 | done |
---|
| 837 | done |
---|
| 838 | if [[ $found = true ]] |
---|
| 839 | then |
---|
| 840 | (( iin = iin + 1 )) |
---|
| 841 | localin[$iin]=$s1; transin[$iin]=$s2b; actionin[$iin]=$s2c; |
---|
| 842 | typein[$iin]=$s3; pathin[$iin]=$s4; endin[$iin]=$s5; |
---|
| 843 | extin[$iin]=$s6 |
---|
| 844 | fi |
---|
| 845 | elif [[ "$s2a" = out && ! ( $do_remote = true && "$s2b" = loc ) ]] |
---|
| 846 | then |
---|
| 847 | found=false |
---|
| 848 | for actual in $output_list |
---|
| 849 | do |
---|
| 850 | for formal in $s3 |
---|
| 851 | do |
---|
| 852 | [[ $actual = $formal || "$formal" = "-" ]] && found=true |
---|
| 853 | done |
---|
| 854 | done |
---|
| 855 | if [[ $found = true ]] |
---|
| 856 | then |
---|
| 857 | (( iout = iout + 1 )) |
---|
| 858 | localout[$iout]=$s1; actionout[$iout]=$s2c; typeout[$iout]=$s3; |
---|
| 859 | pathout[$iout]=$s4; endout[$iout]=$s5; extout[$iout]=$s6 |
---|
| 860 | fi |
---|
| 861 | elif [[ "$s2a" != in && "$s2a" != out ]] |
---|
| 862 | then |
---|
| 863 | printf "\n +++ I/O-attribute in configuration file $config_file has the invalid" |
---|
| 864 | printf "\n value \"$s2\". Only \"in\" and \"out\" are allowed!" |
---|
| 865 | locat=connect; exit |
---|
| 866 | fi |
---|
| 867 | IFS="$IFSALT" |
---|
| 868 | fi |
---|
| 869 | done < $config_file |
---|
| 870 | |
---|
| 871 | else |
---|
| 872 | |
---|
| 873 | |
---|
[1289] | 874 | # EVALUATE THE CONFIGURATION-FILE BY FORTRAN-PROGRAM |
---|
[1] | 875 | [[ $silent = false ]] && printf "..." |
---|
[1289] | 876 | interpreted_config_file=.icf.$RANDOM |
---|
[1] | 877 | |
---|
| 878 | |
---|
[69] | 879 | |
---|
[1289] | 880 | # PROVIDE VALUES OF ENVIRONMENT-VARIABLE FOR interpret_config VIA NAMELIST-FILE |
---|
[69] | 881 | cat > .mrun_environment << %%END%% |
---|
| 882 | &mrun_environment cond1 = '$cond1', cond2 = '$cond2', |
---|
| 883 | config_file = '$config_file', do_remote = '$do_remote', |
---|
| 884 | do_trace = '$do_trace', host = '$host', |
---|
| 885 | input_list = '$input_list', icf = '$interpreted_config_file', |
---|
| 886 | localhost = '$localhost', output_list = '$output_list' / |
---|
| 887 | |
---|
| 888 | %%END%% |
---|
| 889 | |
---|
[1289] | 890 | if [[ "$host" != $localhost ]] |
---|
[66] | 891 | then |
---|
[503] | 892 | |
---|
[1289] | 893 | # REMOTE JOB FROM LOCAL HOST: JUST TAKE THE FIRST EXECUTABLE FOUND |
---|
| 894 | interpret_config_executable=`ls -1 ${PALM_BIN}/interpret_config*.x 2>/dev/null` |
---|
| 895 | if [[ $? != 0 ]] |
---|
[503] | 896 | then |
---|
[1289] | 897 | printf "\n\n +++ no interpret_config found" |
---|
| 898 | printf "\n run \"mbuild -u -h ...\" to generate utilities for this host" |
---|
| 899 | locat=interpret_config; exit |
---|
| 900 | fi |
---|
| 901 | interpret_config_executable=`echo $interpret_config_executable | cut -d" " -f1` |
---|
| 902 | $interpret_config_executable |
---|
[503] | 903 | |
---|
[1289] | 904 | else |
---|
[503] | 905 | |
---|
[1289] | 906 | # CHECK, IF THERE IS AN EXECUTABLE FOR THE BLOCK |
---|
| 907 | if [[ ! -f ${PALM_BIN}/interpret_config${block}.x ]] |
---|
| 908 | then |
---|
| 909 | printf "\n\n +++ no interpret_config found for given block \"$cond1 $cond2\"" |
---|
| 910 | printf "\n run \"mbuild -u -h ...\" to generate utilities for this block" |
---|
| 911 | locat=interpret_config; exit |
---|
[503] | 912 | else |
---|
[1289] | 913 | interpret_config${block}.x |
---|
| 914 | fi |
---|
[503] | 915 | |
---|
[66] | 916 | fi |
---|
[71] | 917 | rm .mrun_environment |
---|
[1] | 918 | |
---|
[71] | 919 | |
---|
[1289] | 920 | # EXECUTE SHELL-COMMANDS GENERATED BY interpret_config WITHIN THIS SHELL |
---|
[1] | 921 | chmod u+x $interpreted_config_file |
---|
| 922 | export PATH=$PATH:. |
---|
| 923 | . $interpreted_config_file |
---|
[71] | 924 | rm $interpreted_config_file |
---|
[1] | 925 | |
---|
[1099] | 926 | fi |
---|
[71] | 927 | |
---|
[69] | 928 | |
---|
[1289] | 929 | # VALUES OF MRUN-OPTIONS OVERWRITE THOSE FROM THE CONFIGURATION-FILE |
---|
[1099] | 930 | [[ $mrun_memory != 0 ]] && memory=$mrun_memory |
---|
| 931 | [[ "$mrun_group_number" != "none" ]] && group_number=$mrun_group_number |
---|
| 932 | [[ $mrun_cpumax != 0 ]] && cpumax=$mrun_cpumax |
---|
| 933 | [[ "$mrun_numprocs" != "" ]] && numprocs=$mrun_numprocs |
---|
| 934 | [[ "$max_par_io_str" != "" ]] && maximum_parallel_io_streams=$max_par_io_str |
---|
| 935 | [[ "$mrun_tasks_per_node" != "" ]] && tasks_per_node=$mrun_tasks_per_node |
---|
[1] | 936 | |
---|
| 937 | |
---|
[1289] | 938 | # ON THE LOCAL MACHINE, DETERMINE (FROM THE CONFIGURATION-FILE) THE PATH |
---|
| 939 | # FOR SOURCE-FILES TO BE COMPILED. |
---|
| 940 | # IN A BATCH-JOB, SOURCES (ROUTINES TO BE COMPILED) ARE COMPLETE ALREADY. |
---|
| 941 | # BEFORE MRUN IS CALLED IN THE JOB, SOURCES_COMPLETE = true IS ASSIGNED (SEE FURTHER BELOW). |
---|
[1] | 942 | if [[ "$SOURCES_COMPLETE" = "" ]] |
---|
| 943 | then |
---|
| 944 | |
---|
[1289] | 945 | # FIRST CHECK, IF A GLOBAL SOURCE PATH (TO BE USED FOR ALL HOSTS) |
---|
| 946 | # HAS BEEN DEFINED |
---|
[1] | 947 | source_path="" |
---|
| 948 | line="" |
---|
| 949 | grep "%source_path" $config_file > tmp_mrun |
---|
| 950 | while read line |
---|
| 951 | do |
---|
| 952 | if [[ "$line" != "" && $(echo $line | cut -c1) != "#" ]] |
---|
| 953 | then |
---|
| 954 | if [[ "$(echo $line | cut -d" " -f3)" = "" ]] |
---|
| 955 | then |
---|
| 956 | global_source_path=`echo $line | cut -d" " -f2` |
---|
| 957 | fi |
---|
| 958 | fi |
---|
| 959 | done < tmp_mrun |
---|
| 960 | |
---|
| 961 | line="" |
---|
| 962 | found=false |
---|
| 963 | grep " $localhost" $config_file | grep "%source_path" > tmp_mrun |
---|
| 964 | while read line |
---|
| 965 | do |
---|
| 966 | if [[ "$line" != "" && $(echo $line | cut -c1) != "#" ]] |
---|
| 967 | then |
---|
| 968 | if [[ $found = true ]] |
---|
| 969 | then |
---|
| 970 | printf "\n\n +++ more than one source path found in configuration file" |
---|
| 971 | printf "\n for local host \"$localhost\" " |
---|
| 972 | locat=source_path; exit |
---|
| 973 | fi |
---|
| 974 | source_path=`echo $line | cut -d" " -f2` |
---|
| 975 | found=true |
---|
| 976 | fi |
---|
| 977 | done < tmp_mrun |
---|
| 978 | rm tmp_mrun |
---|
| 979 | |
---|
| 980 | if [[ "$source_path" = "" ]] |
---|
| 981 | then |
---|
| 982 | if [[ "$global_source_path" != "" ]] |
---|
| 983 | then |
---|
| 984 | source_path=$global_source_path |
---|
| 985 | else |
---|
| 986 | printf "\n\n +++ no source path found in configuration file" |
---|
| 987 | printf "\n for local host \"$localhost\" " |
---|
| 988 | locat=source_path; exit |
---|
| 989 | fi |
---|
| 990 | fi |
---|
| 991 | eval source_path=$source_path |
---|
| 992 | |
---|
| 993 | if [[ ! -d $source_path ]] |
---|
| 994 | then |
---|
| 995 | printf "\n\n +++ source path \"$source_path\" on local host" |
---|
| 996 | printf "\n \"$localhost\" does not exist" |
---|
| 997 | locat=source_path; exit |
---|
| 998 | fi |
---|
| 999 | |
---|
| 1000 | fi |
---|
| 1001 | |
---|
| 1002 | |
---|
[1289] | 1003 | # GET THE GLOBAL REVISION-NUMBER OF THE SVN-REPOSITORY |
---|
| 1004 | # (HANDED OVER TO RESTART-RUNS USING OPTION -G) |
---|
| 1005 | if [[ "$global_revision" = "" && $host != "ibmkisti" ]] |
---|
[78] | 1006 | then |
---|
| 1007 | global_revision=`svnversion $source_path 2>/dev/null` |
---|
| 1008 | global_revision="Rev: $global_revision" |
---|
| 1009 | fi |
---|
[1] | 1010 | |
---|
[78] | 1011 | |
---|
[1289] | 1012 | # ??? das darf doch eigentlich garnicht passieren, weil optionen config-datei uebersteuern ??? |
---|
| 1013 | # CHECK AGAIN, IF EXECUTION SHALL BE DONE ON A REMOTE-HOST (BATCH-JOB). |
---|
| 1014 | # (HOST MAY HAVE CHANGED DUE TO SETTINGS IN THE CONFIGURATION-FILE) |
---|
[1] | 1015 | if [[ -n $host && "$host" != $localhost ]] |
---|
| 1016 | then |
---|
| 1017 | do_batch=true |
---|
| 1018 | do_remote=true |
---|
| 1019 | case $host in |
---|
[1289] | 1020 | (ibm|ibmh|ibmkisti|ibmku|ibms|lccrayb|lccrayh|lccrayf|lcflow|lckyoto|nech|unics|lcxe6|lcxt5m|lck|lckiaps|lckordi|lckyuh|lckyut|lcsb) true;; |
---|
[1] | 1021 | (*) printf "\n" |
---|
[83] | 1022 | printf "\n +++ sorry: execution of batch jobs on remote host \"$host\"" |
---|
| 1023 | printf "\n is not available" |
---|
[1] | 1024 | locat=nqs; (( iec = 0 )); exit;; |
---|
| 1025 | esac |
---|
| 1026 | else |
---|
| 1027 | host=$localhost |
---|
| 1028 | fi |
---|
| 1029 | |
---|
| 1030 | |
---|
[1289] | 1031 | # IN CASE OF PARALLEL EXECUTION, CHECK SOME SPECIFICATIONS CONCERNING PROCESSOR NUMBERS |
---|
[1] | 1032 | if [[ "$cond1" = parallel || "$cond2" = parallel ]] |
---|
| 1033 | then |
---|
| 1034 | |
---|
[1289] | 1035 | # CHECK, IF NUMBER OF CORES TO BE USED HAS BEEN GIVEN |
---|
[1] | 1036 | if [[ ! -n $numprocs ]] |
---|
| 1037 | then |
---|
| 1038 | printf "\n" |
---|
| 1039 | printf "\n +++ option \"-K parallel\" requires additional specification" |
---|
| 1040 | printf "\n of the number of processors to be used by" |
---|
| 1041 | printf "\n mrun-option \"-X\" or by environment-variable" |
---|
| 1042 | printf "\n \"numprocs\" in the configuration file" |
---|
| 1043 | locat=numprocs; (( iec = 0 )); exit |
---|
| 1044 | fi |
---|
| 1045 | |
---|
[1289] | 1046 | # CHECK, IF THE NUMBER OF CORES PER NODE HAS BEEN GIVEN UND IF IT IS AN |
---|
| 1047 | # INTEGRAL DIVISOR OF THE TOTAL NUMBER OF CORES GIVEN BY OPTION -X |
---|
[1039] | 1048 | if [[ "$tasks_per_node" = "" && $host != lcflow && $host != lcxt5m ]] |
---|
[1] | 1049 | then |
---|
[759] | 1050 | printf "\n" |
---|
| 1051 | printf "\n +++ option \"-T\" (tasks per node) is missing" |
---|
| 1052 | printf "\n set -T option or define tasks_per_node in the config file" |
---|
| 1053 | locat=tasks_per_node; (( iec = 0 )); exit |
---|
| 1054 | fi |
---|
[1279] | 1055 | |
---|
| 1056 | if (( numprocs < tasks_per_node )) |
---|
| 1057 | then |
---|
| 1058 | printf "\n" |
---|
| 1059 | printf "\n +++ tasks per node (-T) cannot exceed total number of processors (-X)" |
---|
| 1060 | printf "\n given values: -T $tasks_per_node -X $numprocs" |
---|
| 1061 | locat=tasks_per_node; (( iec = 0 )); exit |
---|
| 1062 | fi |
---|
| 1063 | |
---|
[1039] | 1064 | if [[ $host != lcflow && $host != lcxt5m ]] |
---|
[759] | 1065 | then |
---|
[1279] | 1066 | (( nodes = numprocs / ( tasks_per_node * threads_per_task ) )) |
---|
[848] | 1067 | (( ival = $tasks_per_node )) |
---|
| 1068 | (( pes = numprocs )) |
---|
| 1069 | (( ii = pes / ival )) |
---|
[1279] | 1070 | (( remaining_pes = pes - ii * ival )) |
---|
| 1071 | if (( remaining_pes > 0 )) |
---|
[848] | 1072 | then |
---|
| 1073 | printf "\n" |
---|
[1279] | 1074 | printf "\n +++ WARNING: tasks per node (option \"-T\") is not an integral" |
---|
[848] | 1075 | printf "\n divisor of the total number of processors (option \"-X\")" |
---|
| 1076 | printf "\n values of this mrun-call: \"-T $tasks_per_node\" \"-X $numprocs\"" |
---|
[1279] | 1077 | printf "\n One of the nodes is filled with $remaining_pes instead of $tasks_per_node tasks" |
---|
| 1078 | (( nodes = nodes + 1 )) |
---|
[848] | 1079 | fi |
---|
[1] | 1080 | fi |
---|
| 1081 | |
---|
[759] | 1082 | |
---|
[377] | 1083 | # SETTINGS FOR SUBJOB-COMMAND |
---|
[1] | 1084 | OOPT="-O $threads_per_task" |
---|
| 1085 | |
---|
[1289] | 1086 | # SET THE TOTAL NUMBER OF NODES, REQUIRED FOR THE SUBJOB-COMMAND (SEE FURTHER BELOW) |
---|
[1] | 1087 | if [[ "$tasks_per_node" != "" ]] |
---|
| 1088 | then |
---|
[1119] | 1089 | TOPT="-T $tasks_per_node" |
---|
[1] | 1090 | fi |
---|
| 1091 | |
---|
[1289] | 1092 | # CHECK node_usage FOR ALLOWED VALUES AND SET DEFAULT VALUE, IF NECESSARY |
---|
[1] | 1093 | if [[ $node_usage = default ]] |
---|
| 1094 | then |
---|
| 1095 | if [[ $host = ibms ]] |
---|
| 1096 | then |
---|
| 1097 | node_usage=shared |
---|
| 1098 | else |
---|
| 1099 | node_usage=not_shared |
---|
| 1100 | fi |
---|
| 1101 | fi |
---|
[181] | 1102 | |
---|
[635] | 1103 | if [[ $node_usage != shared && $node_usage != not_shared && $node_usage != singlejob && "$(echo $node_usage | cut -c1-3)" != "sla" ]] |
---|
[1] | 1104 | then |
---|
| 1105 | printf "\n" |
---|
| 1106 | printf "\n +++ node usage (option \"-n\") is only allowed to be set" |
---|
| 1107 | printf "\n \"shared\" or \"not_shared\"" |
---|
| 1108 | locat=tasks_per_node; (( iec = 0 )); exit |
---|
| 1109 | fi |
---|
| 1110 | |
---|
| 1111 | fi |
---|
| 1112 | |
---|
[1289] | 1113 | # CHECK IF HOSTFILE EXISTS |
---|
[1] | 1114 | if [[ -n $hostfile ]] |
---|
| 1115 | then |
---|
| 1116 | if [[ ! -f $hostfile ]] |
---|
| 1117 | then |
---|
| 1118 | printf "\n" |
---|
| 1119 | printf "\n +++ hostfile \"$hostfile\" does not exist" |
---|
| 1120 | locat=hostfile; exit |
---|
| 1121 | fi |
---|
| 1122 | fi |
---|
| 1123 | |
---|
| 1124 | |
---|
[1289] | 1125 | # SET DEFAULT VALUE FOR THE MAXIMUM NUMBER OF PARALLEL IO STREAMS |
---|
[759] | 1126 | if [[ "$maximum_parallel_io_streams" = "" ]] |
---|
| 1127 | then |
---|
| 1128 | maximum_parallel_io_streams=$numprocs |
---|
| 1129 | fi |
---|
[1] | 1130 | |
---|
[759] | 1131 | |
---|
[1289] | 1132 | # SET PORT NUMBER OPTION FOR CALLS OF SSH/SCP, subjob AND batch_scp SCRIPTS |
---|
[1094] | 1133 | if [[ "$scp_port" != "" ]] |
---|
| 1134 | then |
---|
| 1135 | PORTOPT="-P $scp_port" |
---|
| 1136 | SSH_PORTOPT="-p $scp_port" |
---|
| 1137 | fi |
---|
| 1138 | |
---|
| 1139 | |
---|
[1289] | 1140 | # SET DEFAULT-QUEUE, IF NOT GIVEN |
---|
[1] | 1141 | if [[ $queue = none ]] |
---|
| 1142 | then |
---|
| 1143 | case $host in |
---|
[1184] | 1144 | (ibmh) queue=cluster;; |
---|
[693] | 1145 | (ibmkisti) queue=class.32plus;; |
---|
[1442] | 1146 | (lccrayb) queue=mpp1q;; |
---|
| 1147 | (lccrayh) queue=mpp1q;; |
---|
[1040] | 1148 | (lckiaps) queue=normal;; |
---|
[440] | 1149 | (lckyoto) queue=ph;; |
---|
[1099] | 1150 | (lckyuh) queue=fx-single;; |
---|
| 1151 | (lckyut) queue=cx-single;; |
---|
[635] | 1152 | (lctit) queue=S;; |
---|
[1] | 1153 | (nech) queue=none;; |
---|
| 1154 | (unics) queue=unics;; |
---|
| 1155 | esac |
---|
| 1156 | fi |
---|
| 1157 | |
---|
| 1158 | |
---|
[1289] | 1159 | # GENERATE FULL FILENAMES OF INPUT-FILES, INCLUDING THEIR PATH |
---|
| 1160 | # CHECK, IF INPUT-FILES EXIST, AND DETERMINE HIGHEST CYCLE NUMBER (IF CYCLES EXIST) |
---|
[1] | 1161 | (( i = 0 )) |
---|
| 1162 | while (( i < iin )) |
---|
| 1163 | do |
---|
| 1164 | (( i = i + 1 )) |
---|
| 1165 | (( maxcycle = 0 )) |
---|
| 1166 | |
---|
[1289] | 1167 | # GENERATE PATH AND FULL FILE NAME (then-BRANCH: FIXED FULL NAME IS GIVEN, I.E. THE |
---|
| 1168 | # FILE IDENTIFIER IS NOT PART OF THE FILENAME)) |
---|
[1] | 1169 | if [[ "${actionin[$i]}" = di ]] |
---|
| 1170 | then |
---|
[1289] | 1171 | remotepathin[$i]=${pathin[$i]}/${endin[$i]} # EVALUATE REMOTE-PATH ON THE REMOTE |
---|
| 1172 | # HOST ONLY |
---|
[1] | 1173 | eval filename=${pathin[$i]}/${endin[$i]} |
---|
| 1174 | else |
---|
[1289] | 1175 | remotepathin[$i]=${pathin[$i]}/${afname}${endin[$i]} # EVALUATE REMOTE-PATH ON THE REMOTE |
---|
| 1176 | # HOST ONLY |
---|
[1] | 1177 | eval filename=${pathin[$i]}/${afname}${endin[$i]} |
---|
| 1178 | fi |
---|
[892] | 1179 | eval pathname=${pathin[$i]} |
---|
[1] | 1180 | |
---|
[1289] | 1181 | # SAVE INPUT FILE NAME FOR PARAMETER FILE CHECK |
---|
[920] | 1182 | if [[ ("${transin[$i]}" = job) && (-f $filename) ]] |
---|
| 1183 | then |
---|
| 1184 | filename_input=$filename |
---|
| 1185 | fi |
---|
[892] | 1186 | |
---|
[1289] | 1187 | # CHECK IF FILE EXISTS |
---|
[1] | 1188 | if [[ $(ls $filename* 2>&1 | grep -c "not found") = 1 || \ |
---|
[746] | 1189 | $(ls $filename* 2>&1 | grep -c "nicht gefunden") = 1 || \ |
---|
[1] | 1190 | $(ls $filename* 2>&1 | grep -c "No such file") = 1 || \ |
---|
| 1191 | $(ls $filename* 2>&1 | grep -c "does not exist") = 1 ]] |
---|
| 1192 | then |
---|
[1289] | 1193 | |
---|
| 1194 | # FILES WITH ATTRIBUTE locopt ARE OPTIONAL. NO ABORT, IF THEY DO NOT EXIST. |
---|
[1] | 1195 | if [[ "${transin[$i]}" != "locopt" ]] |
---|
| 1196 | then |
---|
| 1197 | printf "\n\n +++ INPUT-file: " |
---|
| 1198 | if [[ "${extin[$i]}" = "" ]] |
---|
| 1199 | then |
---|
| 1200 | printf "\n $filename" |
---|
| 1201 | else |
---|
| 1202 | printf "\n $filename.${extin[$i]}" |
---|
| 1203 | fi |
---|
| 1204 | printf "\n does not exist\n" |
---|
| 1205 | locat=input; exit |
---|
| 1206 | else |
---|
| 1207 | transin[$i]="unavailable" |
---|
| 1208 | fi |
---|
| 1209 | else |
---|
| 1210 | |
---|
[1289] | 1211 | # DETERMINE THE FILE'S CYCLE NUMBER |
---|
[1] | 1212 | ls -1 -d $filename > filelist 2>/dev/null |
---|
| 1213 | ls -1 -d $filename.* >> filelist 2>/dev/null |
---|
| 1214 | while read zeile |
---|
| 1215 | do |
---|
[1101] | 1216 | cycle=$(echo $zeile | cut -f2 -d".") |
---|
[1] | 1217 | if [[ "$cycle" = "$zeile" ]] |
---|
| 1218 | then |
---|
| 1219 | (( icycle = 0 )) |
---|
| 1220 | elif [[ "$cycle" = "${extin[$i]}" ]] |
---|
| 1221 | then |
---|
| 1222 | (( icycle = 0 )) |
---|
| 1223 | else |
---|
| 1224 | (( icycle = $cycle )) |
---|
| 1225 | fi |
---|
| 1226 | if (( icycle > maxcycle )) |
---|
| 1227 | then |
---|
| 1228 | (( maxcycle = icycle )) |
---|
| 1229 | file_to_be_used=$zeile |
---|
| 1230 | fi |
---|
| 1231 | done <filelist |
---|
| 1232 | rm filelist |
---|
| 1233 | |
---|
[1289] | 1234 | # APPEND CYCLE NUMBER TO FILENAME |
---|
[1] | 1235 | if (( maxcycle > 0 )) |
---|
| 1236 | then |
---|
| 1237 | if [[ "${extin[$i]}" != " " && "${extin[$i]}" != "" ]] |
---|
| 1238 | then |
---|
| 1239 | filename=${filename}.$maxcycle.${extin[$i]} |
---|
| 1240 | else |
---|
| 1241 | filename=${filename}.$maxcycle |
---|
| 1242 | fi |
---|
| 1243 | else |
---|
| 1244 | if [[ "${extin[$i]}" != " " && "${extin[$i]}" != "" ]] |
---|
| 1245 | then |
---|
| 1246 | filename=${filename}.${extin[$i]} |
---|
| 1247 | fi |
---|
| 1248 | fi |
---|
| 1249 | |
---|
[1289] | 1250 | # STORE FILENAME WITHOUT PATH BUT WITH CYCLE NUMBER, |
---|
| 1251 | # BECAUSE IT MIGHT BE REQUIRED LATER TO RESTORE THE FILE FROM AN ARCHIVE-SYSTEM |
---|
[1] | 1252 | absnamein[$i]=$filename |
---|
| 1253 | if (( maxcycle > 0 )) |
---|
| 1254 | then |
---|
| 1255 | if [[ "${actionin[$i]}" = di ]] |
---|
| 1256 | then |
---|
| 1257 | frelin[$i]=${endin[$i]}.$maxcycle |
---|
| 1258 | else |
---|
| 1259 | frelin[$i]=${afname}${endin[$i]}.$maxcycle |
---|
| 1260 | fi |
---|
| 1261 | else |
---|
| 1262 | if [[ "${actionin[$i]}" = di ]] |
---|
| 1263 | then |
---|
| 1264 | frelin[$i]=${endin[$i]} |
---|
| 1265 | else |
---|
| 1266 | frelin[$i]=${afname}${endin[$i]} |
---|
| 1267 | fi |
---|
| 1268 | fi |
---|
| 1269 | |
---|
| 1270 | fi |
---|
| 1271 | done |
---|
[920] | 1272 | |
---|
[1289] | 1273 | # GENERATE FULL FILENAMES OF OUTPUT-FILES (WITHOUT $ OR ~), |
---|
| 1274 | # CHECK, IF OUTPUT-FILES EXIST, AND DETERMINE HIGHEST CYCLE NUMBER (IF CYCLES EXIST), |
---|
| 1275 | # OR, IN CASE THAT FILE DOES NOT EXIST, CHECK, IF IT CAN BE CREATED |
---|
| 1276 | # THESE ACTIONS ARE NOT CARRIED OUT, IF FILES SHALL BE TRASFERRED FROM THE REMOTE TO |
---|
| 1277 | # THE LOCAL HOST (BECAUSE THEIR IS NO DIRECT ACCESS TO THE LOCAL DIRECTORIES FROM THE |
---|
| 1278 | # REMOTE HOST) |
---|
[1] | 1279 | (( i = 0 )) |
---|
| 1280 | while (( i < iout )) |
---|
| 1281 | do |
---|
| 1282 | (( i = i + 1 )) |
---|
| 1283 | if [[ ! ( $fromhost != $localhost && ( "${actionout[$i]}" = tr || "${actionout[$i]}" = tra || "${actionout[$i]}" = trpe ) ) ]] |
---|
| 1284 | then |
---|
[260] | 1285 | if [[ "${actionout[$i]}" = tr ]] |
---|
[1] | 1286 | then |
---|
| 1287 | actionout[$i]="" |
---|
[260] | 1288 | elif [[ "${actionout[$i]}" = trpe ]] |
---|
| 1289 | then |
---|
| 1290 | actionout[$i]=pe |
---|
[1] | 1291 | elif [[ "${actionout[$i]}" = tra ]] |
---|
| 1292 | then |
---|
| 1293 | actionout[$i]=a |
---|
| 1294 | fi |
---|
| 1295 | (( maxcycle = 0 )) |
---|
| 1296 | eval filename=${pathout[$i]}/${fname}${endout[$i]} |
---|
| 1297 | eval catalogname=${pathout[$i]} |
---|
| 1298 | if [[ $(ls $filename* 2>&1 | grep -c "not found") = 1 || \ |
---|
[746] | 1299 | $(ls $filename* 2>&1 | grep -c "nicht gefunden") = 1 || \ |
---|
[1] | 1300 | $(ls $filename* 2>&1 | grep -c "No such file") = 1 || \ |
---|
| 1301 | $(ls $filename* 2>&1 | grep -c "does not exist") = 1 ]] |
---|
| 1302 | then |
---|
| 1303 | |
---|
[1289] | 1304 | # IF OUTPUT-FILE DOES NOT EXIST CHECK, IF IT CAN BE CREATED |
---|
[1] | 1305 | if cat /dev/null > $filename |
---|
| 1306 | then |
---|
| 1307 | rm $filename |
---|
| 1308 | else |
---|
| 1309 | |
---|
[1289] | 1310 | # CHECK, IF THE DIRECTORY WHERE FILE SHALL BE COPIED TO EXISTS |
---|
| 1311 | # IF IT DOES NOT EXIST, TRY TO CREATE IT |
---|
[1] | 1312 | if [[ ! -d $catalogname ]] |
---|
| 1313 | then |
---|
| 1314 | if mkdir -p $catalogname |
---|
| 1315 | then |
---|
| 1316 | printf "\n\n *** directory:" |
---|
| 1317 | printf "\n $catalogname" |
---|
| 1318 | printf "\n was created\n" |
---|
| 1319 | else |
---|
| 1320 | printf "\n\n +++ OUTPUT-file:" |
---|
| 1321 | printf "\n $filename" |
---|
| 1322 | printf "\n cannot be created, because directory does not exist" |
---|
| 1323 | printf "\n and cannot be created either" |
---|
| 1324 | printf "\n" |
---|
| 1325 | locat=output ; exit |
---|
| 1326 | fi 2>/dev/null |
---|
| 1327 | else |
---|
| 1328 | printf "\n\n +++ OUTPUT-file:" |
---|
| 1329 | printf "\n $filename" |
---|
| 1330 | printf "\n cannot be created, although directory exists" |
---|
| 1331 | printf "\n" |
---|
| 1332 | locat=output ; exit |
---|
| 1333 | fi |
---|
| 1334 | fi 2>/dev/null |
---|
| 1335 | else |
---|
| 1336 | |
---|
[1289] | 1337 | # DETERMINE THE CYCLE NUMBER |
---|
[1] | 1338 | ls -1 -d $filename > filelist 2>/dev/null |
---|
| 1339 | ls -1 -d $filename.* >> filelist 2>/dev/null |
---|
| 1340 | while read zeile |
---|
| 1341 | do |
---|
[1101] | 1342 | cycle=$(echo $zeile | cut -f2 -d".") |
---|
[1] | 1343 | if [[ "$cycle" = "$zeile" || "$cycle" = ${extout[$i]} ]] |
---|
| 1344 | then |
---|
| 1345 | (( icycle = 1 )) |
---|
| 1346 | else |
---|
| 1347 | (( icycle = $cycle + 1 )) |
---|
| 1348 | fi |
---|
| 1349 | if (( icycle > maxcycle )) |
---|
| 1350 | then |
---|
| 1351 | (( maxcycle = icycle )) |
---|
| 1352 | fi |
---|
| 1353 | done <filelist |
---|
| 1354 | rm filelist |
---|
| 1355 | fi |
---|
| 1356 | |
---|
[1289] | 1357 | # APPEND CYCLE NUMBER TO FILENAME AND CHECK, IF FILE CAN BE CREATED |
---|
| 1358 | # IN CASE OF FILE-APPEND, FILE MUST BE APPENDED TO THE ONE WITH HIGHEST CYCLE NUMBER |
---|
[1] | 1359 | if [[ "${actionout[$i]}" != a ]] |
---|
| 1360 | then |
---|
| 1361 | if (( maxcycle > 0 )) |
---|
| 1362 | then |
---|
| 1363 | filename=${filename}.$maxcycle |
---|
| 1364 | if cat /dev/null > $filename |
---|
| 1365 | then |
---|
| 1366 | rm $filename |
---|
| 1367 | else |
---|
| 1368 | printf "\n +++ OUTPUT-file:" |
---|
| 1369 | printf "\n $filename" |
---|
| 1370 | printf "\n cannot be created" |
---|
| 1371 | locat=output ; exit |
---|
| 1372 | fi |
---|
| 1373 | fi |
---|
| 1374 | else |
---|
| 1375 | (( maxcycle = maxcycle - 1 )) |
---|
| 1376 | if (( maxcycle > 0 )) |
---|
| 1377 | then |
---|
| 1378 | filename=${filename}.$maxcycle |
---|
| 1379 | fi |
---|
| 1380 | fi |
---|
| 1381 | |
---|
[1289] | 1382 | # STORE FILENAME WITHOUT PATH BUT WITH CYCLE NUMBER, |
---|
| 1383 | # BECAUSE IT MIGHT BE REQUIRED LATER TO STORE THE FILE ON AN ARCHIVE-SYSTEM |
---|
| 1384 | # OR TO PUT THIS FILENAME ON FILE OUTPUT_FILE_CONNECTIONS |
---|
[1] | 1385 | pathout[$i]=$filename |
---|
| 1386 | if (( maxcycle > 0 )) |
---|
| 1387 | then |
---|
| 1388 | frelout[$i]=${fname}${endout[$i]}.$maxcycle |
---|
| 1389 | else |
---|
| 1390 | frelout[$i]=${fname}${endout[$i]} |
---|
| 1391 | fi |
---|
| 1392 | |
---|
| 1393 | fi |
---|
| 1394 | done |
---|
| 1395 | |
---|
| 1396 | |
---|
[1289] | 1397 | # THE DVR-PACKAGE REQUIRES ITS OWN LIBRARY |
---|
[83] | 1398 | if [[ $(echo $package_list | grep -c dvrp_graphics) != 0 ]] |
---|
| 1399 | then |
---|
[260] | 1400 | if [[ "$dvr_inc" = "" ]] |
---|
[83] | 1401 | then |
---|
[260] | 1402 | printf "\n\n +++ no value for \"dvr_inc\" given in configuration file" |
---|
[83] | 1403 | printf "\n This is required for the dvrp_graphics package.\n" |
---|
[260] | 1404 | locat=dvr; exit |
---|
[83] | 1405 | fi |
---|
[260] | 1406 | if [[ "$dvr_lib" = "" ]] |
---|
[83] | 1407 | then |
---|
[260] | 1408 | printf "\n\n +++ no value for \"dvr_lib\" given in configuration file" |
---|
[83] | 1409 | printf "\n This is required for the dvrp_graphics package.\n" |
---|
[260] | 1410 | locat=dvr; exit |
---|
[83] | 1411 | fi |
---|
| 1412 | fi |
---|
| 1413 | |
---|
| 1414 | |
---|
[1289] | 1415 | # CHECK, WETHER A MAIN PROGRAM OR AN EXECUTABLE HAVE BEEN DECLARED. |
---|
| 1416 | # EXECUTABLES DO NOT NEED TO BE COMPILED. |
---|
[1] | 1417 | if [[ "$mainprog" = "" && "$executable" = "" ]] |
---|
| 1418 | then |
---|
| 1419 | printf "\n +++ neither main program nor executable defined" |
---|
| 1420 | locat=source; exit |
---|
| 1421 | elif [[ "$mainprog" != "" && "$executable" != "" ]] |
---|
| 1422 | then |
---|
| 1423 | printf "\n +++ main program as well as executable defined" |
---|
| 1424 | locat=source; exit |
---|
| 1425 | elif [[ "$mainprog" = "" && "$executable" != "" ]] |
---|
| 1426 | then |
---|
| 1427 | do_compile=false |
---|
| 1428 | fi |
---|
| 1429 | |
---|
| 1430 | |
---|
[1289] | 1431 | # CREATE SOURCE-DIRECTORY TO COLLECT ROUTINES TO BE COMPILED. |
---|
| 1432 | # LATER THE MRUN-SCRIPT AND CONFIGURATION-FILE WILL ALSO BE COPIED TO THIS DIRECTORY. |
---|
[193] | 1433 | if [[ $restart_run != true && "$SOURCES_COMPLETE" = "" ]] |
---|
[191] | 1434 | then |
---|
| 1435 | rm -rf SOURCES_FOR_RUN_$fname |
---|
| 1436 | mkdir SOURCES_FOR_RUN_$fname |
---|
| 1437 | fi |
---|
| 1438 | |
---|
| 1439 | |
---|
[1289] | 1440 | # COLLECT ALL ROUTINES TO BE COMPILED |
---|
| 1441 | # THIS IS NOT REQUIRED WITHIN BATCH-JOBS, BECAUSE ROUTINES HAVE ALREADY BEEN COLLECTED |
---|
| 1442 | # BY THE MRUN-CALL WHICH CREATED THE BATCH-JOB. |
---|
[1] | 1443 | if [[ $do_compile = true && "$SOURCES_COMPLETE" = "" ]] |
---|
| 1444 | then |
---|
| 1445 | |
---|
[5] | 1446 | [[ "$source_list" = LM ]] && source_list=LOCALLY_MODIFIED |
---|
[1] | 1447 | |
---|
[838] | 1448 | if [[ "$source_list" = LOCALLY_MODIFIED ]] |
---|
[1] | 1449 | then |
---|
| 1450 | |
---|
[1289] | 1451 | # DETERMINE MODIFIED FILES OF THE SVN WORKING COPY |
---|
[5] | 1452 | source_list="" |
---|
| 1453 | cd $source_path |
---|
| 1454 | |
---|
| 1455 | |
---|
[1289] | 1456 | # CHECK, IF DIRECTORY IS UNDER SVN CONTROL |
---|
[5] | 1457 | if [[ ! -d .svn ]] |
---|
| 1458 | then |
---|
| 1459 | printf "\n\n +++ source directory" |
---|
| 1460 | printf "\n \"$source_path\" " |
---|
| 1461 | printf "\n is not under control of \"subversion\"." |
---|
[306] | 1462 | printf "\n Please do not use mrun-option \"-s LOCALLY_MODIFIED\"\n" |
---|
[5] | 1463 | fi |
---|
| 1464 | |
---|
| 1465 | |
---|
[1289] | 1466 | # LIST ALL MODIFIED SOURCE CODE FILES |
---|
[5] | 1467 | Filenames="" |
---|
[69] | 1468 | svn status > tmp_mrun |
---|
| 1469 | while read line |
---|
[5] | 1470 | do |
---|
| 1471 | firstc=`echo $line | cut -c1` |
---|
| 1472 | if [[ $firstc = M || $firstc = "?" ]] |
---|
| 1473 | then |
---|
| 1474 | Name=`echo "$line" | cut -c8-` |
---|
| 1475 | extension=`echo $Name | cut -d. -f2` |
---|
| 1476 | if [[ "$extension" = f90 || "$extension" = F90 || "$extension" = f || "$extension" = F || "$extension" = c ]] |
---|
| 1477 | then |
---|
| 1478 | Filenames="$Filenames "$Name |
---|
| 1479 | fi |
---|
| 1480 | fi |
---|
[69] | 1481 | done < tmp_mrun |
---|
[5] | 1482 | |
---|
| 1483 | |
---|
[1289] | 1484 | # COPY FILES TO SOURCES_FOR_RUN_... |
---|
[5] | 1485 | for dateiname in $Filenames |
---|
| 1486 | do |
---|
| 1487 | cp $dateiname $working_directory/SOURCES_FOR_RUN_$fname |
---|
| 1488 | source_list=$source_list"$dateiname " |
---|
| 1489 | done |
---|
| 1490 | |
---|
| 1491 | cd - > /dev/null |
---|
| 1492 | |
---|
| 1493 | |
---|
[1289] | 1494 | # COPY FILES GIVEN BY OPTION -s TO DIRECTORY SOURCES_FOR_RUN_... |
---|
| 1495 | # AUTOMATIC RESTART RUNS JUST ACCESS THE DIRECTORY CREATED BY THE INITIAL RUN |
---|
[5] | 1496 | elif [[ "$source_list" != "" && $restart_run != true ]] |
---|
[1] | 1497 | then |
---|
| 1498 | |
---|
| 1499 | cd $source_path |
---|
| 1500 | |
---|
| 1501 | for filename in $source_list |
---|
| 1502 | do |
---|
| 1503 | |
---|
[1289] | 1504 | # SOURCE CODE FILE IS NOT ALLOWED TO INCLUDE PATH |
---|
[1103] | 1505 | if [[ $(echo $filename | grep -c "/") != 0 ]] |
---|
[1] | 1506 | then |
---|
| 1507 | printf "\n +++ source code file: $filename" |
---|
| 1508 | printf "\n must not contain (\"/\") " |
---|
| 1509 | locat=source; exit |
---|
| 1510 | fi |
---|
| 1511 | |
---|
| 1512 | if [[ ! -f $filename ]] |
---|
| 1513 | then |
---|
| 1514 | printf "\n +++ source code file: $filename" |
---|
| 1515 | printf "\n does not exist" |
---|
| 1516 | locat=source; exit |
---|
| 1517 | else |
---|
| 1518 | cp $filename $working_directory/SOURCES_FOR_RUN_$fname |
---|
| 1519 | fi |
---|
| 1520 | |
---|
| 1521 | done |
---|
| 1522 | |
---|
| 1523 | cd - > /dev/null |
---|
| 1524 | |
---|
| 1525 | fi |
---|
| 1526 | |
---|
| 1527 | |
---|
[1289] | 1528 | # CHECK, IF A MAIN PROGRAM EXISTS AND IF IT IS PART OF THE LIST OF FILES |
---|
| 1529 | # TO BE COMPILED. IF NOT, ADD IT TO THE LIST. |
---|
[5] | 1530 | if [[ $restart_run != true ]] |
---|
[1] | 1531 | then |
---|
| 1532 | |
---|
| 1533 | if [[ ! -f "$source_path/$mainprog" ]] |
---|
| 1534 | then |
---|
| 1535 | printf "\n\n +++ main program: $mainprog" |
---|
| 1536 | printf "\n does not exist in source directory" |
---|
| 1537 | printf "\n \"$source_path\"\n" |
---|
| 1538 | locat=source; exit |
---|
| 1539 | else |
---|
| 1540 | if [[ $(echo $source_list | grep -c $mainprog) = 0 ]] |
---|
| 1541 | then |
---|
| 1542 | cp $source_path/$mainprog SOURCES_FOR_RUN_$fname |
---|
| 1543 | source_list=${mainprog}" $source_list" |
---|
| 1544 | fi |
---|
| 1545 | fi |
---|
| 1546 | fi |
---|
| 1547 | |
---|
| 1548 | |
---|
[1289] | 1549 | # CHECK, IF MAKEFILE EXISTS AND COPY IT TO THE SOURCES_FOR_RUN... DIRECTORY |
---|
| 1550 | # NOT REQUIRED FOR RESTART RUNS, SOURCES_FOR_RUN... HAS BEEN CREATED BY THE INITIAL RUN |
---|
[211] | 1551 | if [[ "$restart_run" != true ]] |
---|
| 1552 | then |
---|
| 1553 | [[ "$makefile" = "" ]] && makefile=$source_path/Makefile |
---|
| 1554 | if [[ ! -f $makefile ]] |
---|
| 1555 | then |
---|
| 1556 | printf "\n +++ file \"$makefile\" does not exist" |
---|
| 1557 | locat=make; exit |
---|
| 1558 | else |
---|
| 1559 | cp $makefile SOURCES_FOR_RUN_$fname/Makefile |
---|
| 1560 | fi |
---|
| 1561 | fi |
---|
| 1562 | |
---|
| 1563 | |
---|
[1289] | 1564 | # COPY FILES FROM OPTIONAL SOURCE PATH GIVEN IN THE CONFIGURATION FILE |
---|
[5] | 1565 | if [[ $restart_run != true && "$add_source_path" != "" ]] |
---|
[1] | 1566 | then |
---|
| 1567 | |
---|
[1289] | 1568 | # DOES THE DIRECTORY EXIST? |
---|
[1] | 1569 | if [[ ! -d $add_source_path ]] |
---|
| 1570 | then |
---|
| 1571 | printf "\n\n +++ WARNING: additional source code directory" |
---|
| 1572 | printf "\n \"$add_source_path\" " |
---|
| 1573 | printf "\n does not exist or is not a directory." |
---|
| 1574 | printf "\n No source code will be used from this directory!\n" |
---|
| 1575 | add_source_path="" |
---|
[931] | 1576 | if [[ $silent == false ]] |
---|
| 1577 | then |
---|
| 1578 | sleep 3 |
---|
| 1579 | fi |
---|
[1] | 1580 | else |
---|
| 1581 | |
---|
| 1582 | cd $add_source_path |
---|
[211] | 1583 | found=false |
---|
[1] | 1584 | |
---|
| 1585 | Names=$(ls -1 *.f90 2>&1) |
---|
| 1586 | [[ $(echo $Names | grep -c '*.f90') = 0 ]] && AddFilenames="$Names" |
---|
| 1587 | Names=$(ls -1 *.F90 2>&1) |
---|
| 1588 | [[ $(echo $Names | grep -c '*.F90') = 0 ]] && AddFilenames="$AddFilenames $Names" |
---|
| 1589 | Names=$(ls -1 *.F 2>&1) |
---|
| 1590 | [[ $(echo $Names | grep -c '*.F') = 0 ]] && AddFilenames="$AddFilenames $Names" |
---|
| 1591 | Names=$(ls -1 *.f 2>&1) |
---|
| 1592 | [[ $(echo $Names | grep -c '*.f') = 0 ]] && AddFilenames="$AddFilenames $Names" |
---|
| 1593 | Names=$(ls -1 *.c 2>&1) |
---|
| 1594 | [[ $(echo $Names | grep -c '*.c') = 0 ]] && AddFilenames="$AddFilenames $Names" |
---|
| 1595 | |
---|
| 1596 | cd - > /dev/null |
---|
| 1597 | cd SOURCES_FOR_RUN_$fname |
---|
| 1598 | |
---|
[211] | 1599 | # COPY MAKEFILE IF EXISTING |
---|
| 1600 | if [[ -f $add_source_path/Makefile ]] |
---|
| 1601 | then |
---|
| 1602 | printf "\n\n *** user Makefile from directory" |
---|
| 1603 | printf "\n \"$add_source_path\" is used \n" |
---|
[931] | 1604 | if [[ $silent == false ]] |
---|
| 1605 | then |
---|
| 1606 | sleep 1 |
---|
| 1607 | fi |
---|
[211] | 1608 | cp $add_source_path/Makefile . |
---|
| 1609 | fi |
---|
| 1610 | |
---|
[1] | 1611 | for dateiname in $AddFilenames |
---|
| 1612 | do |
---|
| 1613 | if [[ -f $dateiname ]] |
---|
| 1614 | then |
---|
| 1615 | printf "\n +++ source code file \"$dateiname\" found in additional" |
---|
| 1616 | printf "\n source code directory \"$add_source_path\" " |
---|
[211] | 1617 | printf "\n but was also given with option \"-s\" which means that it should be taken" |
---|
| 1618 | printf "\n from directory \"$source_path\"." |
---|
[1] | 1619 | locat=source; exit |
---|
| 1620 | fi |
---|
| 1621 | |
---|
| 1622 | cp $add_source_path/$dateiname . |
---|
| 1623 | source_list="$source_list $dateiname" |
---|
| 1624 | |
---|
[211] | 1625 | # CHECK IF FILE IS CONTAINED IN MAKEFILE |
---|
| 1626 | if [[ $(grep -c $dateiname Makefile) = 0 ]] |
---|
| 1627 | then |
---|
| 1628 | printf "\n\n +++ user file \"$dateiname\" " |
---|
| 1629 | printf "\n is not listed in Makefile \n" |
---|
| 1630 | locat=source; exit |
---|
| 1631 | else |
---|
| 1632 | |
---|
| 1633 | if [[ $found = false ]] |
---|
[1] | 1634 | then |
---|
[211] | 1635 | found=true |
---|
| 1636 | printf "\n\n *** following user file(s) added to the" |
---|
| 1637 | printf " files to be translated:\n " |
---|
[1] | 1638 | fi |
---|
[211] | 1639 | printf "$dateiname " |
---|
[931] | 1640 | if [[ $silent == false ]] |
---|
| 1641 | then |
---|
| 1642 | sleep 0.5 |
---|
| 1643 | fi |
---|
| 1644 | |
---|
[1] | 1645 | fi |
---|
| 1646 | done |
---|
[211] | 1647 | [[ $found = true ]] && printf "\n" |
---|
[1] | 1648 | cd - > /dev/null |
---|
| 1649 | fi |
---|
| 1650 | fi |
---|
| 1651 | |
---|
| 1652 | |
---|
[1289] | 1653 | # ADD ALL ROUTINES BELONGING TO SOFTWARE PACKAGES (GIVEN BY OPTION -p) |
---|
| 1654 | # TO THE LIST OF FILES TO BE COMPILED |
---|
[5] | 1655 | if [[ $restart_run != true && -n $package_list ]] |
---|
[1] | 1656 | then |
---|
| 1657 | |
---|
| 1658 | cd $source_path |
---|
| 1659 | |
---|
| 1660 | for package in $package_list |
---|
| 1661 | do |
---|
| 1662 | |
---|
| 1663 | [[ $package = "dvrp_graphics+1PE" ]] && package=dvrp_graphics |
---|
| 1664 | |
---|
[1289] | 1665 | # DETERMINE FILES BELONGING TO THE PACKAGE |
---|
| 1666 | # ERROR MESSAGE ARE REDIRECTED TO /dev/null, BECAUSE WILDCARD (*) ALSO GIVES |
---|
| 1667 | # THE NAME OF THE DIRECTORY |
---|
[1] | 1668 | package_source_list=`grep "defined( __$package " * 2>/dev/null | cut -f1 -d:` |
---|
| 1669 | |
---|
| 1670 | |
---|
[1289] | 1671 | # ADD THESE FILES TO THE LIST OF FILES TO BE COMPILED, |
---|
| 1672 | # IF THEY ARE NOT ALREADY PART OF THE LIST |
---|
[1] | 1673 | for source_list_name in $package_source_list |
---|
| 1674 | do |
---|
| 1675 | if [[ $(echo $source_list | grep -c $source_list_name) = 0 ]] |
---|
| 1676 | then |
---|
| 1677 | |
---|
[1289] | 1678 | # ONLY TAKE FILES WITH VALID SUFFIX |
---|
[1] | 1679 | ending=`echo $source_list_name | cut -f2 -d.` |
---|
| 1680 | if [[ "$ending" = f90 || "$ending" = F90 || "$ending" = f || "$ending" = F || "$ending" = c ]] |
---|
| 1681 | then |
---|
| 1682 | cp $source_list_name $working_directory/SOURCES_FOR_RUN_$fname |
---|
| 1683 | source_list="$source_list $source_list_name" |
---|
| 1684 | fi |
---|
| 1685 | fi |
---|
| 1686 | done |
---|
| 1687 | done |
---|
| 1688 | |
---|
| 1689 | cd - > /dev/null |
---|
| 1690 | fi |
---|
| 1691 | |
---|
| 1692 | fi # do_compile=true |
---|
| 1693 | |
---|
| 1694 | |
---|
[1289] | 1695 | # IF SOURCE CODE IS TO BE COMPILED, DO SOME MORE CHECKS |
---|
| 1696 | # AND SET PRE-PROCESSOR DIRECTIVES |
---|
[1199] | 1697 | if [[ $do_compile = true || $create_executable_for_batch = true ]] |
---|
[1] | 1698 | then |
---|
| 1699 | |
---|
[1289] | 1700 | # SET PREPROCESSOR-DIRECTIVES TO SELECT OPERATING SYSTEM SPECIFIC CODE |
---|
[1] | 1701 | if [[ $(echo $localhost | cut -c1-3) = ibm ]] |
---|
| 1702 | then |
---|
[82] | 1703 | cpp_options="${cpp_options},-D__ibm=__ibm" |
---|
[1] | 1704 | elif [[ $(echo $localhost | cut -c1-3) = nec ]] |
---|
| 1705 | then |
---|
[82] | 1706 | cpp_options="$cpp_options -D__nec" |
---|
| 1707 | elif [[ $(echo $localhost | cut -c1-2) = lc ]] |
---|
| 1708 | then |
---|
| 1709 | cpp_options="$cpp_options -D__lc" |
---|
[1] | 1710 | else |
---|
[82] | 1711 | cpp_options="$cpp_options -D__$localhost" |
---|
[1] | 1712 | fi |
---|
[83] | 1713 | |
---|
[1289] | 1714 | # SET DIRECTIVES GIVEN BY OPTION -K (E.G. parallel) |
---|
[1] | 1715 | if [[ $(echo $localhost | cut -c1-3) = ibm ]] |
---|
| 1716 | then |
---|
[82] | 1717 | [[ -n $cond1 ]] && cpp_options="${cpp_options},-D__$cond1=__$cond1" |
---|
| 1718 | [[ -n $cond2 ]] && cpp_options="${cpp_options},-D__$cond2=__$cond2" |
---|
[1] | 1719 | else |
---|
[82] | 1720 | [[ -n $cond1 ]] && cpp_options="$cpp_options -D__$cond1" |
---|
| 1721 | [[ -n $cond2 ]] && cpp_options="$cpp_options -D__$cond2" |
---|
[1] | 1722 | fi |
---|
[83] | 1723 | |
---|
[1289] | 1724 | # SET DIRECTIVES FOR ACTIVATING SOFTWARE-PACKAGES (OPTION -p) |
---|
[1] | 1725 | if [[ -n $package_list ]] |
---|
| 1726 | then |
---|
| 1727 | for package in $package_list |
---|
| 1728 | do |
---|
| 1729 | if [[ $(echo $localhost | cut -c1-3) = ibm ]] |
---|
| 1730 | then |
---|
| 1731 | if [[ $package != "dvrp_graphics+1PE" ]] |
---|
| 1732 | then |
---|
[82] | 1733 | cpp_options="${cpp_options},-D__$package=__$package" |
---|
[1] | 1734 | else |
---|
[82] | 1735 | cpp_options="${cpp_options},-D__dvrp_graphics=__dvrp_graphics" |
---|
[1] | 1736 | export use_seperate_pe_for_dvrp_output=true |
---|
| 1737 | fi |
---|
| 1738 | else |
---|
| 1739 | if [[ $package != "dvrp_graphics+1PE" ]] |
---|
| 1740 | then |
---|
[82] | 1741 | cpp_options="$cpp_options -D__$package" |
---|
[1] | 1742 | else |
---|
[82] | 1743 | cpp_options="$cpp_options -D__dvrp_graphics" |
---|
[1] | 1744 | export use_seperate_pe_for_dvrp_output=true |
---|
| 1745 | fi |
---|
| 1746 | fi |
---|
| 1747 | done |
---|
| 1748 | fi |
---|
[83] | 1749 | |
---|
[1289] | 1750 | # SET DIRECTIVES GIVEN BY OPTION -D |
---|
[1] | 1751 | if [[ -n $cpp_opts ]] |
---|
| 1752 | then |
---|
| 1753 | for popts in $cpp_opts |
---|
| 1754 | do |
---|
[82] | 1755 | if [[ $(echo $localhost | cut -c1-3) = ibm ]] |
---|
| 1756 | then |
---|
| 1757 | cpp_options="${cpp_options},-D__$popts=__$popts" |
---|
| 1758 | else |
---|
| 1759 | cpp_options="$cpp_options -D__$popts" |
---|
| 1760 | fi |
---|
[1] | 1761 | done |
---|
| 1762 | fi |
---|
| 1763 | |
---|
| 1764 | else |
---|
| 1765 | |
---|
| 1766 | |
---|
[1289] | 1767 | # FOR LOCAL RUNS CHECK AGAIN, IF EXECUTABLE EXISTS |
---|
[1] | 1768 | if [[ $do_remote = false ]] |
---|
| 1769 | then |
---|
| 1770 | if [[ ! -f $executable ]] |
---|
| 1771 | then |
---|
| 1772 | printf "\n +++ executable file: $executable" |
---|
| 1773 | printf "\n does not exist" |
---|
| 1774 | locat=executable; exit |
---|
| 1775 | fi |
---|
| 1776 | fi |
---|
| 1777 | fi |
---|
| 1778 | |
---|
| 1779 | |
---|
[1289] | 1780 | # DETERMINE THE JOB MODE |
---|
[1491] | 1781 | if [[ $(echo $localhost | cut -c1-3) = ibm ]] |
---|
[1] | 1782 | then |
---|
[1491] | 1783 | if [[ "$LOADLBATCH" = yes ]] |
---|
| 1784 | then |
---|
| 1785 | batch_job=.TRUE. |
---|
| 1786 | jobmo=BATCH |
---|
| 1787 | else |
---|
| 1788 | batch_job=.FALSE. |
---|
| 1789 | jobmo=INTERACTIVE |
---|
| 1790 | fi |
---|
[1] | 1791 | else |
---|
[1491] | 1792 | if [[ "$ENVIRONMENT" = BATCH ]] |
---|
| 1793 | then |
---|
| 1794 | batch_job=.TRUE. |
---|
| 1795 | jobmo=BATCH |
---|
| 1796 | else |
---|
| 1797 | batch_job=.FALSE. |
---|
| 1798 | jobmo=INTERACTIVE |
---|
| 1799 | fi |
---|
[1] | 1800 | fi |
---|
| 1801 | |
---|
[1289] | 1802 | # NO INTERACTIVE RUNS ALLOWED ON LCTIT |
---|
[635] | 1803 | if [[ $host = lctit && $jobmo = INTERACTIVE && $do_batch = false ]] |
---|
| 1804 | then |
---|
| 1805 | printf "\n +++ no interactive runs allowed on host \"$host\" " |
---|
| 1806 | printf "\n please submit batch job using mrun option \"-b\" \n" |
---|
| 1807 | locat=normal; exit |
---|
| 1808 | fi |
---|
| 1809 | |
---|
| 1810 | |
---|
[1289] | 1811 | # CHECK, IF USER DEFINED A COMPILER |
---|
[1] | 1812 | if [[ "$compiler_name" = "" ]] |
---|
| 1813 | then |
---|
[82] | 1814 | |
---|
[220] | 1815 | printf "\n +++ no compiler specified for \"$host $cond1 $cond2\"" |
---|
[82] | 1816 | locat=compiler_name; exit |
---|
| 1817 | |
---|
[1] | 1818 | fi |
---|
| 1819 | |
---|
| 1820 | |
---|
[1289] | 1821 | # DETERMINE THE NAME OF MRUN'S TEMPORARY WORKING DIRECTORY |
---|
[1] | 1822 | kennung=$RANDOM |
---|
| 1823 | if [[ "$tmp_user_catalog" = "" ]] |
---|
| 1824 | then |
---|
[312] | 1825 | if [[ $localhost = ibmh ]] |
---|
[1] | 1826 | then |
---|
[312] | 1827 | tmp_user_catalog=$SCRATCH |
---|
[1] | 1828 | elif [[ $localhost = nech ]] |
---|
| 1829 | then |
---|
| 1830 | tmp_user_catalog=$WRKSHR |
---|
| 1831 | else |
---|
| 1832 | tmp_user_catalog=/tmp |
---|
| 1833 | fi |
---|
| 1834 | fi |
---|
| 1835 | TEMPDIR=$tmp_user_catalog/${usern}.$kennung |
---|
| 1836 | |
---|
| 1837 | |
---|
[1289] | 1838 | # DETERMINE THE NAME OF THE DIRECTORY WHICH IS USED TO TEMPORARILY STORE DATA FOR RESTART RUNS |
---|
[1] | 1839 | if [[ "$tmp_data_catalog" = "" ]] |
---|
| 1840 | then |
---|
[622] | 1841 | if [[ $localhost = nech ]] |
---|
[1] | 1842 | then |
---|
| 1843 | tmp_data_catalog=$WRKSHR/mrun_restart_data |
---|
| 1844 | else |
---|
| 1845 | tmp_data_catalog=/tmp/mrun_restart_data |
---|
| 1846 | fi |
---|
| 1847 | fi |
---|
| 1848 | |
---|
| 1849 | |
---|
[1289] | 1850 | # IN CASE OF LOCAL RUNS REPLACE ENVIRONMENT VARIABLES BY THEIR VALUES |
---|
[1199] | 1851 | if [[ $do_remote = false && $do_compile = true || $create_executable_for_batch = true ]] |
---|
[1] | 1852 | then |
---|
| 1853 | eval fopts=\"$fopts\" |
---|
| 1854 | eval lopts=\"$lopts\" |
---|
| 1855 | fi |
---|
| 1856 | |
---|
| 1857 | |
---|
| 1858 | |
---|
[1289] | 1859 | # DETERMINE COMPILE- AND LINK-OPTIONS |
---|
[1210] | 1860 | fopts="$fopts $netcdf_inc $fftw_inc $dvr_inc" |
---|
| 1861 | lopts="$lopts $netcdf_lib $fftw_lib $dvr_lib" |
---|
[1] | 1862 | ROPTS="$ropts" |
---|
[1289] | 1863 | # if [[ ( $(echo $host | cut -c1-3) = nec || $(echo $host | cut -c1-3) = ibm || $host = lckyoto || $host = lctit || $host = lcflow || $host = lcxe6 || $host = lcxt5m || $host = lck || $host = lckiaps || $host = lckordi || $host = lcsb || $host ) && -n $numprocs ]] |
---|
[1090] | 1864 | # then |
---|
[1] | 1865 | XOPT="-X $numprocs" |
---|
[1090] | 1866 | # fi |
---|
[1] | 1867 | |
---|
| 1868 | |
---|
| 1869 | |
---|
[1289] | 1870 | # CHECK THE CPU-LIMIT. IT MUST BE GIVEN FOR BATCH-JOBS AND IS COMMUNICATED TO THE |
---|
| 1871 | # EXECUTABLE VIA NAMELIST-PARAMETER cputime |
---|
[1] | 1872 | done=false |
---|
| 1873 | while [[ $done = false ]] |
---|
| 1874 | do |
---|
| 1875 | cputime=$cpumax |
---|
| 1876 | if (( $cputime == 0 )) |
---|
| 1877 | then |
---|
[246] | 1878 | if [[ $do_batch = true ]] |
---|
| 1879 | then |
---|
| 1880 | printf "\n +++ cpu-time is undefined" |
---|
| 1881 | printf "\n >>> Please type CPU-time in seconds as INTEGER:" |
---|
| 1882 | printf "\n >>> " |
---|
| 1883 | read cputime 1>/dev/null 2>&1 |
---|
| 1884 | else |
---|
| 1885 | cputime=10000000 # NO CPU LIMIT FOR INTERACTIVE RUNS |
---|
| 1886 | fi |
---|
[1] | 1887 | else |
---|
| 1888 | done=true |
---|
| 1889 | fi |
---|
| 1890 | cpumax=$cputime |
---|
| 1891 | done |
---|
| 1892 | |
---|
| 1893 | (( minuten = cputime / 60 )) |
---|
| 1894 | (( sekunden = cputime - minuten * 60 )) |
---|
| 1895 | |
---|
| 1896 | |
---|
[1289] | 1897 | # CHECK THE MEMORY DEMAND |
---|
[1] | 1898 | if [[ $do_batch = true ]] |
---|
| 1899 | then |
---|
| 1900 | done=false |
---|
| 1901 | while [[ $done = false ]] |
---|
| 1902 | do |
---|
| 1903 | if (( memory == 0 )) |
---|
| 1904 | then |
---|
| 1905 | printf "\n +++ memory demand is undefined" |
---|
| 1906 | printf "\n >>> Please type memory in MByte per process as INTEGER:" |
---|
| 1907 | printf "\n >>> " |
---|
| 1908 | read memory 1>/dev/null 2>&1 |
---|
| 1909 | else |
---|
| 1910 | done=true |
---|
| 1911 | fi |
---|
| 1912 | done |
---|
| 1913 | fi |
---|
| 1914 | |
---|
| 1915 | |
---|
[1289] | 1916 | # IN CASE OF REMOTE-JOBS CHECK, IF A USERNAME FOR THE REMOTE HOST IS GIVEN |
---|
[1] | 1917 | if [[ $do_remote = true && -z $remote_username ]] |
---|
| 1918 | then |
---|
| 1919 | while [[ -z $remote_username ]] |
---|
| 1920 | do |
---|
| 1921 | printf "\n +++ username on remote host \"$host\" is undefined" |
---|
| 1922 | printf "\n >>> Please type username:" |
---|
| 1923 | printf "\n >>> " |
---|
| 1924 | read remote_username |
---|
| 1925 | done |
---|
| 1926 | mc="$mc -u$remote_username" |
---|
| 1927 | fi |
---|
| 1928 | |
---|
[892] | 1929 | # CHECK FOR INITIAL COMMANDS AFTER LOGIN |
---|
| 1930 | if [[ "$login_init_cmd" != "" ]] |
---|
| 1931 | then |
---|
| 1932 | export init_cmds="${login_init_cmd};" |
---|
| 1933 | fi |
---|
[221] | 1934 | |
---|
[892] | 1935 | |
---|
[1289] | 1936 | # SET THE MODULE-LOAD COMMAD AND EXPORT IT FOR subjob |
---|
[493] | 1937 | if [[ "$modules" != "" ]] |
---|
| 1938 | then |
---|
[678] | 1939 | if [[ $host = lctit ]] |
---|
| 1940 | then |
---|
| 1941 | export module_calls=". $modules" |
---|
| 1942 | else |
---|
| 1943 | export module_calls="module load ${modules};" |
---|
| 1944 | fi |
---|
[493] | 1945 | fi |
---|
| 1946 | |
---|
| 1947 | |
---|
[555] | 1948 | |
---|
[1289] | 1949 | # OUTPUT OF THE MRUN-HEADER |
---|
[1] | 1950 | calltime=$(date) |
---|
| 1951 | printf "\n" |
---|
[1101] | 1952 | printf "#------------------------------------------------------------------------# \n" |
---|
| 1953 | printf "| %-35s%35s | \n" "$version" "$calltime" |
---|
| 1954 | printf "| | \n" |
---|
[1] | 1955 | spalte1="called on:"; spalte2=$localhost_realname |
---|
[1101] | 1956 | printf "| %-25s%-45s | \n" "$spalte1" "$spalte2" |
---|
[1289] | 1957 | if [[ $do_remote = true ]] |
---|
[1] | 1958 | then |
---|
[1289] | 1959 | spalte1="execution on:"; spalte2="$host (username: $remote_username)" |
---|
[1] | 1960 | else |
---|
[1289] | 1961 | spalte1="execution on:"; spalte2="$host ($localhost_realname)" |
---|
[1] | 1962 | fi |
---|
[1101] | 1963 | printf "| %-25s%-45s | \n" "$spalte1" "$spalte2" |
---|
[1] | 1964 | if [[ -n $numprocs ]] |
---|
| 1965 | then |
---|
[1106] | 1966 | if [[ $run_coupled_model = false ]] |
---|
| 1967 | then |
---|
| 1968 | spalte1="number of PEs:"; spalte2=$numprocs |
---|
| 1969 | else |
---|
| 1970 | spalte1="number of PEs:"; spalte2="$numprocs (atmosphere: $numprocs_atmos, ocean: $numprocs_ocean)" |
---|
| 1971 | fi |
---|
[1101] | 1972 | printf "| %-25s%-45s | \n" "$spalte1" "$spalte2" |
---|
[1] | 1973 | fi |
---|
| 1974 | if [[ -n $tasks_per_node ]] |
---|
| 1975 | then |
---|
| 1976 | spalte1="tasks per node:"; spalte2="$tasks_per_node (number of nodes: $nodes)" |
---|
[1101] | 1977 | printf "| %-25s%-45s | \n" "$spalte1" "$spalte2" |
---|
[1279] | 1978 | if (( remaining_pes > 0 )) |
---|
| 1979 | then |
---|
| 1980 | spalte1=" "; spalte2="one of the nodes only filled with $remaining_pes tasks" |
---|
| 1981 | printf "| %-25s%-45s | \n" "$spalte1" "$spalte2" |
---|
| 1982 | fi |
---|
[1] | 1983 | fi |
---|
[759] | 1984 | if [[ $maximum_parallel_io_streams != $numprocs ]] |
---|
| 1985 | then |
---|
| 1986 | spalte1="max par io streams:"; spalte2="$maximum_parallel_io_streams" |
---|
[1101] | 1987 | printf "| %-25s%-45s | \n" "$spalte1" "$spalte2" |
---|
[759] | 1988 | fi |
---|
[622] | 1989 | if [[ $use_openmp = true ]] |
---|
[1] | 1990 | then |
---|
| 1991 | spalte1="threads per task:"; spalte2="$threads_per_task" |
---|
[1101] | 1992 | printf "| %-25s%-45s | \n" "$spalte1" "$spalte2" |
---|
[1] | 1993 | fi |
---|
[1101] | 1994 | printf "| | \n" |
---|
[1] | 1995 | if [[ $do_compile = true ]] |
---|
| 1996 | then |
---|
[475] | 1997 | if [[ "$mopts" != "" ]] |
---|
| 1998 | then |
---|
[1101] | 1999 | spalte1="make options:"; spalte2=$(echo "$mopts" | cut -c-45) |
---|
| 2000 | printf "| %-25s%-45s | \n" "$spalte1" "$spalte2" |
---|
| 2001 | zeile=$(echo "$mopts" | cut -c46-) |
---|
[475] | 2002 | while [[ "$zeile" != "" ]] |
---|
| 2003 | do |
---|
| 2004 | spalte1="" |
---|
[1101] | 2005 | spalte2=$(echo "$zeile" | cut -c-45) |
---|
| 2006 | printf "| %-25s%-45s | \n" "$spalte1" "$spalte2" |
---|
| 2007 | zeile=$(echo "$zeile" | cut -c46-) |
---|
[475] | 2008 | done |
---|
| 2009 | fi |
---|
| 2010 | |
---|
[1101] | 2011 | spalte1="cpp directives:"; spalte2=$(echo "$cpp_options" | cut -c-45) |
---|
| 2012 | printf "| %-25s%-45s | \n" "$spalte1" "$spalte2" |
---|
| 2013 | zeile=$(echo "$cpp_options" | cut -c46-) |
---|
[1] | 2014 | while [[ "$zeile" != "" ]] |
---|
| 2015 | do |
---|
| 2016 | spalte1="" |
---|
[1101] | 2017 | spalte2=$(echo "$zeile" | cut -c-45) |
---|
| 2018 | printf "| %-25s%-45s | \n" "$spalte1" "$spalte2" |
---|
| 2019 | zeile=$(echo "$zeile" | cut -c46-) |
---|
[1] | 2020 | done |
---|
| 2021 | |
---|
[1101] | 2022 | spalte1="compiler options:"; spalte2=$(echo "$fopts" | cut -c-45) |
---|
| 2023 | printf "| %-25s%-45s | \n" "$spalte1" "$spalte2" |
---|
| 2024 | zeile=$(echo "$fopts" | cut -c46-) |
---|
[1] | 2025 | while [[ "$zeile" != "" ]] |
---|
| 2026 | do |
---|
| 2027 | spalte1="" |
---|
[1101] | 2028 | spalte2=$(echo "$zeile" | cut -c-45) |
---|
| 2029 | printf "| %-25s%-45s | \n" "$spalte1" "$spalte2" |
---|
| 2030 | zeile=$(echo "$zeile" | cut -c46-) |
---|
[1] | 2031 | done |
---|
| 2032 | |
---|
[1101] | 2033 | spalte1="linker options:"; spalte2=$(echo "$lopts" | cut -c-45) |
---|
| 2034 | printf "| %-25s%-45s | \n" "$spalte1" "$spalte2" |
---|
| 2035 | zeile=$(echo "$lopts" | cut -c46-) |
---|
[1] | 2036 | while [[ "$zeile" != "" ]] |
---|
| 2037 | do |
---|
| 2038 | spalte1="" |
---|
[1101] | 2039 | spalte2=$(echo "$zeile" | cut -c-45) |
---|
| 2040 | printf "| %-25s%-45s | \n" "$spalte1" "$spalte2" |
---|
| 2041 | zeile=$(echo "$zeile" | cut -c46-) |
---|
[1] | 2042 | done |
---|
| 2043 | |
---|
[1101] | 2044 | spalte1="modules to be load:"; spalte2=$(echo "$modules" | cut -c-45) |
---|
| 2045 | printf "| %-25s%-45s | \n" "$spalte1" "$spalte2" |
---|
| 2046 | zeile=$(echo "$modules" | cut -c46-) |
---|
[493] | 2047 | while [[ "$zeile" != "" ]] |
---|
| 2048 | do |
---|
| 2049 | spalte1="" |
---|
[1101] | 2050 | spalte2=$(echo "$zeile" | cut -c-45) |
---|
| 2051 | printf "| %-25s%-45s | \n" "$spalte1" "$spalte2" |
---|
| 2052 | zeile=$(echo "$zeile" | cut -c46-) |
---|
[493] | 2053 | done |
---|
| 2054 | |
---|
[1101] | 2055 | spalte1="main program:"; spalte2=$mainprog |
---|
| 2056 | printf "| %-25s%-45s | \n" "$spalte1" "$spalte2" |
---|
[1] | 2057 | else |
---|
| 2058 | spalte1=executable:; spalte2=$executable |
---|
[1101] | 2059 | printf "| %-25s%-45s | \n" "$spalte1" "$spalte2" |
---|
[1] | 2060 | fi |
---|
[1101] | 2061 | printf "| | \n" |
---|
| 2062 | spalte1="base name of files:"; spalte2=$fname |
---|
| 2063 | printf "| %-25s%-45s | \n" "$spalte1" "$spalte2" |
---|
[1] | 2064 | if [[ $fname != $afname ]] |
---|
| 2065 | then |
---|
[1101] | 2066 | spalte1="base name of input files:"; spalte2=$afname |
---|
| 2067 | printf "| %-25s%-45s | \n" "$spalte1" "$spalte2" |
---|
[1] | 2068 | fi |
---|
[1101] | 2069 | spalte1="INPUT control list:"; spalte2=$(echo $input_list) |
---|
| 2070 | printf "| %-25s%-45s | \n" "$spalte1" "$spalte2" |
---|
| 2071 | spalte1="OUTPUT control list:"; spalte2=$(echo $output_list) |
---|
| 2072 | printf "| %-25s%-45s | \n" "$spalte1" "$spalte2" |
---|
[1] | 2073 | |
---|
[1106] | 2074 | if [[ "$ocean_file_appendix" = true ]] |
---|
| 2075 | then |
---|
| 2076 | printf "| %-35s%-35s | \n" "suffix \"_O\" is added to local files" " " |
---|
| 2077 | fi |
---|
| 2078 | |
---|
[1] | 2079 | if [[ $do_batch = true || "$LOADLBATCH" = yes ]] |
---|
| 2080 | then |
---|
| 2081 | spalte1="memory demand / PE":; spalte2="$memory MB" |
---|
[1101] | 2082 | printf "| %-25s%-45s | \n" "$spalte1" "$spalte2" |
---|
[1] | 2083 | spalte1=CPU-time:; spalte2="$minuten:$sekunden" |
---|
[1101] | 2084 | printf "| %-25s%-45s | \n" "$spalte1" "$spalte2" |
---|
[1] | 2085 | fi |
---|
| 2086 | |
---|
| 2087 | if [[ $do_compile = true ]] |
---|
| 2088 | then |
---|
[1101] | 2089 | printf "| | \n" |
---|
| 2090 | printf "| Files to be compiled: | \n" |
---|
[1] | 2091 | zeile=$source_list |
---|
| 2092 | while [[ "$zeile" != "" ]] |
---|
| 2093 | do |
---|
[1101] | 2094 | linestart=$(echo $zeile | cut -c-70) |
---|
| 2095 | printf "| %-70s | \n" "$linestart" |
---|
| 2096 | zeile=$(echo "$zeile" | cut -c71-) |
---|
[1] | 2097 | done |
---|
| 2098 | fi |
---|
[1101] | 2099 | printf "#------------------------------------------------------------------------#" |
---|
[1] | 2100 | |
---|
| 2101 | |
---|
| 2102 | |
---|
[1289] | 2103 | # OUTPUT OF FILE CONNECTIONS IN CASE OF TRACEBACK |
---|
[1] | 2104 | if [[ $do_trace = true ]] |
---|
| 2105 | then |
---|
| 2106 | (( i = 0 )) |
---|
| 2107 | while (( i < iin )) |
---|
| 2108 | do |
---|
| 2109 | (( i = i + 1 )) |
---|
| 2110 | if (( i == 1 )) |
---|
| 2111 | then |
---|
| 2112 | printf "\n\n >>> INPUT-file assignments:\n" |
---|
| 2113 | fi |
---|
| 2114 | printf "\n ${localin[$i]} : ${absnamein[$i]}" |
---|
| 2115 | done |
---|
| 2116 | (( i = 0 )) |
---|
| 2117 | while (( i < iout )) |
---|
| 2118 | do |
---|
| 2119 | (( i = i + 1 )) |
---|
| 2120 | if (( i == 1 )) |
---|
| 2121 | then |
---|
| 2122 | printf "\n\n >>> OUTPUT-file assignments:\n" |
---|
| 2123 | fi |
---|
| 2124 | printf "\n ${localout[$i]} : ${pathout[$i]}" |
---|
| 2125 | done |
---|
| 2126 | (( i = 0 )) |
---|
| 2127 | while (( i < iic )) |
---|
| 2128 | do |
---|
| 2129 | (( i = i + 1 )) |
---|
| 2130 | if (( i == 1 )) |
---|
| 2131 | then |
---|
| 2132 | printf "\n\n >>> INPUT-commands:\n" |
---|
| 2133 | fi |
---|
| 2134 | printf "\n ${in_command[$i]}" |
---|
| 2135 | done |
---|
| 2136 | (( i = 0 )) |
---|
| 2137 | while (( i < ioc )) |
---|
| 2138 | do |
---|
| 2139 | (( i = i + 1 )) |
---|
| 2140 | if (( i == 1 )) |
---|
| 2141 | then |
---|
| 2142 | printf "\n\n >>> OUTPUT-commands:\n" |
---|
| 2143 | fi |
---|
| 2144 | printf "\n ${out_command[$i]}" |
---|
| 2145 | done |
---|
| 2146 | fi |
---|
| 2147 | |
---|
| 2148 | |
---|
[1289] | 2149 | # QUERY FOR CONTINUE (ON LOCAL MACHINES ONLY) |
---|
[1] | 2150 | if [[ $remotecall = false && $silent = false && $jobmo != BATCH ]] |
---|
| 2151 | then |
---|
| 2152 | antwort=dummy |
---|
| 2153 | printf "\n\n" |
---|
[1101] | 2154 | printf " >>> everything o.k. (y/n) ? " |
---|
| 2155 | while read antwort |
---|
[1] | 2156 | do |
---|
[1101] | 2157 | if [[ "$antwort" != y && "$antwort" != Y && "$antwort" != n && "$antwort" != N ]] |
---|
| 2158 | then |
---|
| 2159 | printf " >>> everything o.k. (y/n) ? " |
---|
| 2160 | else |
---|
| 2161 | break |
---|
| 2162 | fi |
---|
[1] | 2163 | done |
---|
| 2164 | if [[ $antwort = n || $antwort = N ]] |
---|
| 2165 | then |
---|
| 2166 | locat=user_abort; (( iec = 0 )); exit |
---|
| 2167 | fi |
---|
| 2168 | if [[ $do_batch = true ]] |
---|
| 2169 | then |
---|
| 2170 | printf " >>> batch-job will be created and submitted" |
---|
| 2171 | else |
---|
[1289] | 2172 | printf " >>> MRUN will now continue to execute on this machine" |
---|
[1] | 2173 | fi |
---|
| 2174 | fi |
---|
| 2175 | |
---|
[841] | 2176 | |
---|
[1101] | 2177 | # PERFORM PARAMETER FILE CHECK (COUPLED RUNS ARE NOT SUPPORTED YET) |
---|
| 2178 | # DEFINE VARIABLES FOR FREQUENTLY USED DIRECTORIES |
---|
[841] | 2179 | check_depository="${working_directory}/trunk/UTIL" |
---|
| 2180 | check_sources="${working_directory}/tmp_check_namelist_files" |
---|
[818] | 2181 | skip_check=false |
---|
[841] | 2182 | |
---|
[1101] | 2183 | # CHECK IF NAMELIST_FILE_CHECK HAS BEEN COMPILED SUCCESSFULLY |
---|
[920] | 2184 | if [[ ! -f $check_depository/check_namelist_files.tar ]] |
---|
[841] | 2185 | then |
---|
[1101] | 2186 | skip_check=true |
---|
| 2187 | reason="run on remote host or parameter file check has not been compiled." |
---|
[920] | 2188 | fi |
---|
| 2189 | if [[ ! -f $PALM_BIN/check_namelist_files.x ]] |
---|
| 2190 | then |
---|
[1101] | 2191 | skip_check=true |
---|
| 2192 | reason="parameter file check has not been compiled." |
---|
[892] | 2193 | fi |
---|
[841] | 2194 | |
---|
[1101] | 2195 | # CHECK FOR PARALLEL RUN; OTHERWISE SKIP CHECK |
---|
[892] | 2196 | if [[ "$cond1" != "parallel" && "$cond2" != "parallel" ]] |
---|
| 2197 | then |
---|
[1101] | 2198 | skip_check=true |
---|
| 2199 | reason="serial run." |
---|
[841] | 2200 | fi |
---|
| 2201 | |
---|
[1101] | 2202 | # ONLY PERFORM CHECK IF -z OPTION IS NOT SET, NO RESTART RUN IS CARRIED OUT |
---|
| 2203 | # AND IF THE EXECUTION HOST IS THE LOCAL HOST |
---|
| 2204 | # ATTENTION: THIS ROUTINE DOES NOT WORK IF THE COMPILER ON THE LOCAL HOST |
---|
| 2205 | # DIFFERS FROM THE COMPILER ON THE REMOTE HOST |
---|
[892] | 2206 | if [[ $check_namelist_files == false ]] |
---|
[807] | 2207 | then |
---|
[1101] | 2208 | skip_check=true |
---|
| 2209 | reason="-z option set." |
---|
[815] | 2210 | fi |
---|
[892] | 2211 | |
---|
| 2212 | if [[ $fromhost != $localhost ]] |
---|
[815] | 2213 | then |
---|
[1101] | 2214 | skip_check=true |
---|
| 2215 | reason="submitting host is local host." |
---|
[892] | 2216 | fi |
---|
[1] | 2217 | |
---|
[892] | 2218 | if [[ $run_coupled_model == true ]] |
---|
| 2219 | then |
---|
| 2220 | skip_check=true |
---|
| 2221 | reason="coupled run." |
---|
| 2222 | fi |
---|
[1] | 2223 | |
---|
[892] | 2224 | if [[ $restart_run == true ]] |
---|
| 2225 | then |
---|
| 2226 | skip_check=true |
---|
| 2227 | reason="restart run." |
---|
| 2228 | fi |
---|
[807] | 2229 | |
---|
[1101] | 2230 | # SKIP CHECK IN CASE OF RESTART RUN: CHECK WHETHER THE LAST CHAR IS "f" IN PARIN |
---|
[1122] | 2231 | (( last_char_int = `echo $filename_input | wc -c` - 1 )) |
---|
| 2232 | last_char=`echo $filename_input | cut -c $last_char_int` |
---|
[892] | 2233 | if [[ "$last_char" == "f" ]] |
---|
| 2234 | then |
---|
| 2235 | skip_check=true |
---|
[1069] | 2236 | reason="restart run." |
---|
[892] | 2237 | fi |
---|
[807] | 2238 | |
---|
[892] | 2239 | if [[ $skip_check == false ]] |
---|
| 2240 | then |
---|
| 2241 | tmp_check=${working_directory}/tmp_check |
---|
[841] | 2242 | |
---|
[1241] | 2243 | # GET TOPOGRAPHY PARAMETER FILE SUFFIX (USUALLY "_TOPO"). THIS FILE IS |
---|
[1101] | 2244 | # NOT NECESSARILY REQUIRED |
---|
[818] | 2245 | line="" |
---|
| 2246 | found=false |
---|
[892] | 2247 | grep "TOPOGRAPHY_DATA" $config_file > $tmp_check |
---|
[818] | 2248 | while read line1 |
---|
| 2249 | do |
---|
| 2250 | line="$line1" |
---|
| 2251 | if [[ "$line" != "" && $(echo $line | cut -c1) != "#" ]] |
---|
| 2252 | then |
---|
| 2253 | topo_suffix=`echo $line | tr -s " " | cut -d" " -s -f5` |
---|
| 2254 | found=true |
---|
| 2255 | fi |
---|
| 2256 | done < $tmp_check |
---|
[807] | 2257 | |
---|
[818] | 2258 | if [[ $found = false ]] |
---|
| 2259 | then |
---|
| 2260 | printf "\n +++ no TOPOGRAPHY list entry found in the configuration file." |
---|
| 2261 | fi |
---|
| 2262 | |
---|
[1241] | 2263 | # GET NUDGING PARAMETER FILE SUFFIX (USUALLY "_NUDGE"). THIS FILE IS |
---|
| 2264 | # NOT NECESSARILY REQUIRED |
---|
| 2265 | line="" |
---|
| 2266 | found=false |
---|
| 2267 | grep "NUDGING_DATA" $config_file > $tmp_check |
---|
| 2268 | while read line1 |
---|
| 2269 | do |
---|
| 2270 | line="$line1" |
---|
| 2271 | if [[ "$line" != "" && $(echo $line | cut -c1) != "#" ]] |
---|
| 2272 | then |
---|
| 2273 | nudge_suffix=`echo $line | tr -s " " | cut -d" " -s -f5` |
---|
| 2274 | found=true |
---|
| 2275 | fi |
---|
| 2276 | done < $tmp_check |
---|
| 2277 | |
---|
| 2278 | if [[ $found = false ]] |
---|
| 2279 | then |
---|
| 2280 | printf "\n +++ no NUDGING list entry found in the configuration file." |
---|
| 2281 | fi |
---|
| 2282 | |
---|
| 2283 | # GET LARGE SCALE FORCING PARAMETER FILE SUFFIX (USUALLY "_LSF"). THIS FILE IS |
---|
| 2284 | # NOT NECESSARILY REQUIRED |
---|
| 2285 | line="" |
---|
| 2286 | found=false |
---|
| 2287 | grep "LSF_DATA" $config_file > $tmp_check |
---|
| 2288 | while read line1 |
---|
| 2289 | do |
---|
| 2290 | line="$line1" |
---|
| 2291 | if [[ "$line" != "" && $(echo $line | cut -c1) != "#" ]] |
---|
| 2292 | then |
---|
| 2293 | lsf_suffix=`echo $line | tr -s " " | cut -d" " -s -f5` |
---|
| 2294 | found=true |
---|
| 2295 | fi |
---|
| 2296 | done < $tmp_check |
---|
| 2297 | |
---|
| 2298 | if [[ $found = false ]] |
---|
| 2299 | then |
---|
| 2300 | printf "\n +++ no LSF list entry found in the configuration file." |
---|
| 2301 | fi |
---|
| 2302 | |
---|
[807] | 2303 | rm -rf ${working_directory}/tmp_check |
---|
| 2304 | |
---|
[1241] | 2305 | # CHECK IF THE P3DF FILE MUST BE CHECKED |
---|
[807] | 2306 | for item in $input_list |
---|
| 2307 | do |
---|
[892] | 2308 | if [[ "$item" == "restart" ]] |
---|
[807] | 2309 | then |
---|
| 2310 | check_restart=1 |
---|
| 2311 | else |
---|
| 2312 | check_restart=0 |
---|
| 2313 | fi |
---|
| 2314 | done |
---|
| 2315 | |
---|
[1101] | 2316 | # ERROR IF NO PARAMETER FILE WAS FOUND, OTHERWISE PROCEED |
---|
| 2317 | if [[ (! -f $filename_input) && ( "$filename_input" != "" ) ]] |
---|
[807] | 2318 | then |
---|
[920] | 2319 | printf "\n\n +++ ERROR: parameter file ($filename_input) not found." |
---|
[807] | 2320 | locat=check_namelist; exit |
---|
| 2321 | fi |
---|
| 2322 | |
---|
[1101] | 2323 | # CHECK IF THE RESTART PARAMETER FILE EXISTS (IF NECESSARY) |
---|
[807] | 2324 | if [[ $check_restart == 1 ]] |
---|
| 2325 | then |
---|
[892] | 2326 | |
---|
[920] | 2327 | filenamef="${filename_input}f" |
---|
[892] | 2328 | if [[ ! -f $filenamef ]] |
---|
[807] | 2329 | then |
---|
[892] | 2330 | printf "\n\n +++ WARNING: restart parameter file ($filenamef) is missing." |
---|
[807] | 2331 | check_restart=0 |
---|
| 2332 | answer=dummy |
---|
| 2333 | printf "\n\n" |
---|
| 2334 | |
---|
[818] | 2335 | if [[ $silent == false ]] |
---|
[807] | 2336 | then |
---|
[818] | 2337 | while [[ "$answer" != c && "$answer" != C && "$answer" != a && "$answer" != A ]] |
---|
| 2338 | do |
---|
| 2339 | printf " >>> continue anyway (c(ontinue)/a(bort)) ? " |
---|
| 2340 | read answer |
---|
| 2341 | done |
---|
| 2342 | if [[ $answer = a || $answer = A ]] |
---|
| 2343 | then |
---|
| 2344 | printf "\n +++ Aborting...." |
---|
| 2345 | locat=normal; exit |
---|
| 2346 | fi |
---|
[807] | 2347 | fi |
---|
| 2348 | else |
---|
| 2349 | check_restart=1 |
---|
| 2350 | fi |
---|
| 2351 | fi |
---|
| 2352 | |
---|
[1101] | 2353 | # CREATE TEMPORARY SOURCES_FOR_CHECK PATH |
---|
[807] | 2354 | mkdir $check_sources |
---|
| 2355 | cd $check_sources |
---|
| 2356 | |
---|
[892] | 2357 | |
---|
[1101] | 2358 | # CHECK FOR USER CODE, OTHERWISE USE THE PRECOMPILED CHECK_NAMELIST_FILES.X |
---|
[892] | 2359 | if [[ -d $add_source_path ]] |
---|
[807] | 2360 | then |
---|
| 2361 | printf "\n\n *** copying files from $check_depository" |
---|
| 2362 | cp $check_depository/check_namelist_files.tar ./ |
---|
| 2363 | |
---|
| 2364 | printf "\n\n *** untar of makefile and source files in $check_sources" |
---|
| 2365 | tar -xf check_namelist_files.tar > /dev/null 2>&1 |
---|
| 2366 | |
---|
| 2367 | printf "\n\n *** adding user code." |
---|
[892] | 2368 | cp $add_source_path/* ./ |
---|
[807] | 2369 | touch check_namelist_files.f90 |
---|
| 2370 | |
---|
[1101] | 2371 | # GET COMPILER OPTIONS AND PERFORM MAKE |
---|
[807] | 2372 | printf "\n\n *** compiling code if necessary...\n" |
---|
[1045] | 2373 | |
---|
[1101] | 2374 | # workaround for batch jobs on local machine (lcxe6) |
---|
[1045] | 2375 | if [[ $do_batch == true && $do_remote == false ]] |
---|
| 2376 | then |
---|
| 2377 | eval $init_cmds |
---|
| 2378 | fi |
---|
| 2379 | |
---|
[1101] | 2380 | # GET CHECK OPTIONS |
---|
[1083] | 2381 | line="" |
---|
| 2382 | found=false |
---|
| 2383 | |
---|
| 2384 | grep "$localhost" ${base_directory}/${config_file} | grep "%cpp_options" > $tmp_check |
---|
| 2385 | |
---|
| 2386 | while read line1 |
---|
| 2387 | do |
---|
| 2388 | |
---|
| 2389 | if [[ $(echo $line1 | cut -d" " -s -f3-) = "$localhost" ]] |
---|
| 2390 | then |
---|
| 2391 | line="$line1" |
---|
| 2392 | fi |
---|
| 2393 | |
---|
| 2394 | if [[ "$line" != "" && $(echo $line | cut -c1) != "#" ]] |
---|
| 2395 | then |
---|
[1289] | 2396 | # REMOVE COLONS FROM OPTION-STRING, REMOVE ALL -D OPTIONS |
---|
[1101] | 2397 | line="$line " |
---|
[1083] | 2398 | copts_check=`echo $line | cut -d" " -s -f2 | sed 's/::/%DUM%/g' | sed 's/:/ /g' | sed 's/%DUM%/:/g' | sed 's/-D[^ ]* //g' | sed 's/ -D.*//g'` |
---|
| 2399 | found=true |
---|
| 2400 | fi |
---|
| 2401 | |
---|
| 2402 | done < $tmp_check |
---|
| 2403 | copts_check="$copts_check -D__check -D__parallel" |
---|
| 2404 | |
---|
[807] | 2405 | make -f Makefile_check F90=$compiler_name_ser COPT="$copts_check" |
---|
| 2406 | |
---|
[1101] | 2407 | # GET MAKE OUTPUT |
---|
[807] | 2408 | if [[ $? != 0 ]] |
---|
| 2409 | then |
---|
[815] | 2410 | printf "\n +++ error during make." |
---|
| 2411 | answer=dummy |
---|
| 2412 | printf "\n\n" |
---|
[818] | 2413 | if [[ $silent == false ]] |
---|
[815] | 2414 | then |
---|
[818] | 2415 | while [[ "$answer" != c && "$answer" != C && "$answer" != a && "$answer" != A ]] |
---|
| 2416 | do |
---|
| 2417 | printf " >>> continue anyway (c(ontinue)/a(bort)) ? " |
---|
| 2418 | read answer |
---|
| 2419 | done |
---|
| 2420 | if [[ $answer = a || $answer = A ]] |
---|
| 2421 | then |
---|
| 2422 | printf "\n +++ Aborting..." |
---|
| 2423 | rm -rf $check_sources |
---|
| 2424 | locat=normal; exit |
---|
| 2425 | else |
---|
| 2426 | skip_check=true |
---|
| 2427 | fi |
---|
[815] | 2428 | else |
---|
| 2429 | skip_check=true |
---|
| 2430 | fi |
---|
[807] | 2431 | fi |
---|
| 2432 | else |
---|
| 2433 | cp $PALM_BIN/check_namelist_files.x ./ |
---|
| 2434 | fi |
---|
| 2435 | |
---|
[920] | 2436 | cp $filename_input ./PARIN |
---|
[807] | 2437 | if [[ $check_restart == 1 ]] |
---|
| 2438 | then |
---|
[892] | 2439 | cp $filenamef ./PARINF |
---|
[807] | 2440 | fi |
---|
| 2441 | |
---|
[892] | 2442 | if [[ -f ${pathname}/${fname}${topo_suffix} && $skip_check == false ]] |
---|
[818] | 2443 | then |
---|
| 2444 | printf "\n *** adding topography data" |
---|
[892] | 2445 | cp ${pathname}/${fname}${topo_suffix} ./TOPOGRAPHY_DATA |
---|
[818] | 2446 | |
---|
[1101] | 2447 | # IN CASE OF TOPOGRAPHY AND HIGH GRID POINT NUMBERS, THE STACK SIZE |
---|
| 2448 | # MUST BE INCREASED. THIS IS DUE TO THE ARRAY nzb_local AND topo_height, |
---|
| 2449 | # WHICH REQUIRE SUFFICIENT MEMORY |
---|
[818] | 2450 | ulimit -s unlimited |
---|
| 2451 | fi |
---|
| 2452 | |
---|
[1241] | 2453 | if [[ -f ${pathname}/${fname}${nudge_suffix} && $skip_check == false ]] |
---|
| 2454 | then |
---|
| 2455 | printf "\n *** adding nudging data" |
---|
| 2456 | cp ${pathname}/${fname}${nudge_suffix} ./NUDGING_DATA |
---|
| 2457 | fi |
---|
| 2458 | |
---|
| 2459 | if [[ -f ${pathname}/${fname}${lsf_suffix} && $skip_check == false ]] |
---|
| 2460 | then |
---|
| 2461 | printf "\n *** adding large scale forcing data" |
---|
| 2462 | cp ${pathname}/${fname}${lsf_suffix} ./LSF_DATA |
---|
| 2463 | fi |
---|
| 2464 | |
---|
[1101] | 2465 | # CREATE ENVPAR FILE, WHICH IS NEEDED BY CHECK_NAMELIST_FILES.X |
---|
[807] | 2466 | cat > ENVPAR << %%END%% |
---|
[823] | 2467 | &envpar run_identifier = '$fname', host = '$host', |
---|
[807] | 2468 | write_binary = '$write_binary', tasks_per_node = $tasks_per_node, |
---|
| 2469 | maximum_parallel_io_streams = $maximum_parallel_io_streams, |
---|
| 2470 | maximum_cpu_time_allowed = ${cpumax}., |
---|
| 2471 | revision = '$global_revision', |
---|
| 2472 | local_dvrserver_running = $local_dvrserver_running / |
---|
| 2473 | |
---|
| 2474 | %%END%% |
---|
| 2475 | |
---|
[1101] | 2476 | # SAFETY CHECK: ONLY PROCEED IF THE PARAMETER CHECK PROGRAM WAS PROPERLY COMPILED |
---|
| 2477 | if [[ ! -f check_namelist_files.x && $skip_check == false ]] |
---|
| 2478 | then |
---|
[807] | 2479 | printf "\n +++ WARNING: check_namelist_files.x not found." |
---|
| 2480 | answer=dummy |
---|
| 2481 | printf "\n\n" |
---|
[818] | 2482 | |
---|
| 2483 | if [[ $silent == false ]] |
---|
[807] | 2484 | then |
---|
[818] | 2485 | while [[ "$answer" != c && "$answer" != C && "$answer" != a && "$answer" != A ]] |
---|
| 2486 | do |
---|
| 2487 | printf " >>> continue anyway (c(ontinue)/a(bort)) ? " |
---|
| 2488 | read answer |
---|
| 2489 | done |
---|
| 2490 | if [[ $answer = a || $answer = A ]] |
---|
| 2491 | then |
---|
| 2492 | printf "\n +++ Aborting..." |
---|
| 2493 | rm -rf $check_sources |
---|
| 2494 | locat=normal; exit |
---|
| 2495 | else |
---|
[1101] | 2496 | printf "\n *** skipping parameter file check." |
---|
[818] | 2497 | fi |
---|
| 2498 | fi |
---|
| 2499 | |
---|
[815] | 2500 | elif [[ $skip_check == false ]] |
---|
| 2501 | then |
---|
[1101] | 2502 | # STARTING THE PARAMETER FILE CHECK |
---|
[807] | 2503 | printf "\n\n *** starting parameter file check..." |
---|
| 2504 | |
---|
[1101] | 2505 | # CHECKING THE P3D FILE |
---|
[920] | 2506 | printf "\n\n (1) checking $filename_input" |
---|
[931] | 2507 | echo "$numprocs 0 0" > VARIN |
---|
[807] | 2508 | errors=`./check_namelist_files.x < VARIN 2>&1` |
---|
| 2509 | |
---|
| 2510 | check_error=false |
---|
| 2511 | if [[ "$errors" == "" ]] |
---|
| 2512 | then |
---|
| 2513 | printf " --> o.k." |
---|
| 2514 | else |
---|
| 2515 | printf " --> failed." |
---|
| 2516 | check_error=true |
---|
| 2517 | printf "\n\n $errors" |
---|
| 2518 | fi |
---|
| 2519 | |
---|
[1101] | 2520 | # CHECKING THE PD3F FILE IF NECESSARY |
---|
[807] | 2521 | if [[ $check_restart == 1 && $check_error == false ]] |
---|
| 2522 | then |
---|
[892] | 2523 | printf "\n\n (2) checking $filenamef" |
---|
[807] | 2524 | |
---|
[1101] | 2525 | # FIRST CHECK IF INITIALIZING_ACTIONS="READ_RESTART_DATA" IS SET |
---|
| 2526 | # IN &INIPAR LIST |
---|
[807] | 2527 | found=false |
---|
[1101] | 2528 | cat PARINF | while read line |
---|
[807] | 2529 | do |
---|
| 2530 | line=$(echo $line|sed 's/ //g') |
---|
| 2531 | if [[ $line == *"&inipar"* ]] |
---|
| 2532 | then |
---|
| 2533 | start_search=true |
---|
| 2534 | fi |
---|
| 2535 | |
---|
| 2536 | if [[ $start_search == true ]] |
---|
| 2537 | then |
---|
| 2538 | if [[ $line == *"initializing_actions='read_restart_data'"* ]] |
---|
| 2539 | then |
---|
| 2540 | found=true |
---|
| 2541 | break |
---|
| 2542 | fi |
---|
| 2543 | fi |
---|
| 2544 | |
---|
| 2545 | if [[ $line == *"/"* ]] |
---|
| 2546 | then |
---|
| 2547 | start_search=false |
---|
| 2548 | fi |
---|
| 2549 | |
---|
| 2550 | done |
---|
| 2551 | |
---|
| 2552 | if [[ $found = false ]] |
---|
| 2553 | then |
---|
| 2554 | printf "\n\n +++ ERROR: initializing_actions = 'read_restart_data' not found" |
---|
| 2555 | printf "\n in &inipar list in $fname$p3df_suffix." |
---|
| 2556 | rm -rf $check_sources |
---|
| 2557 | locat=check_namelist; exit |
---|
| 2558 | fi |
---|
| 2559 | |
---|
[1101] | 2560 | # READ max_user_pr FROM FILES |
---|
[931] | 2561 | if [[ -f parin_for_check ]] |
---|
| 2562 | then |
---|
| 2563 | read max_pr_user < parin_for_check |
---|
| 2564 | else |
---|
| 2565 | max_user_pr=0 |
---|
| 2566 | fi |
---|
| 2567 | |
---|
| 2568 | echo "$numprocs 1 $max_pr_user" > VARIN |
---|
[807] | 2569 | errors=`./check_namelist_files.x < VARIN 2>&1` |
---|
| 2570 | |
---|
| 2571 | if [[ "$errors" == "" ]] |
---|
| 2572 | then |
---|
| 2573 | printf " --> o.k." |
---|
| 2574 | else |
---|
| 2575 | printf " --> failed." |
---|
| 2576 | check_error=true |
---|
| 2577 | printf "\n\n $errors" |
---|
| 2578 | fi |
---|
| 2579 | fi |
---|
| 2580 | |
---|
[1101] | 2581 | # REPORT ERRORS AND CONTINUE/EXIT |
---|
[807] | 2582 | if [[ $check_error == true ]] |
---|
| 2583 | then |
---|
| 2584 | printf "\n +++ errors found in the parameter file!\n" |
---|
| 2585 | answer=dummy |
---|
| 2586 | printf "\n\n" |
---|
| 2587 | |
---|
| 2588 | while [[ "$answer" != c && "$answer" != C && "$answer" != a && "$answer" != A ]] |
---|
| 2589 | do |
---|
[1101] | 2590 | printf " >>> continue anyway (c(ontinue)/a(bort)) ? " |
---|
| 2591 | read answer |
---|
[807] | 2592 | done |
---|
| 2593 | |
---|
| 2594 | if [[ $answer = a || $answer = A ]] |
---|
| 2595 | then |
---|
| 2596 | printf "\n +++ Aborting..." |
---|
| 2597 | rm -rf $check_sources |
---|
| 2598 | locat=normal; exit |
---|
| 2599 | fi |
---|
| 2600 | else |
---|
| 2601 | printf "\n\n *** parameter file(s) seem(s) to be o.k.\n" |
---|
| 2602 | fi |
---|
| 2603 | rm -rf $check_sources |
---|
| 2604 | fi |
---|
| 2605 | else |
---|
[1103] | 2606 | printf "\n\n +++ skipping parameter file check due to following reason: $reason \n" |
---|
[807] | 2607 | fi |
---|
| 2608 | |
---|
[818] | 2609 | # DELETE TEMPORARY DIRECTORY AND FINISH NAMELIST FILE CHECK |
---|
| 2610 | rm -rf $check_sources |
---|
[807] | 2611 | cd $working_directory |
---|
| 2612 | |
---|
[892] | 2613 | |
---|
[1199] | 2614 | # DETERMINE PATH FOR MAKE DEPOSITORY |
---|
| 2615 | if [[ $do_batch = false || $create_executable_for_batch = true ]] |
---|
| 2616 | then |
---|
| 2617 | |
---|
| 2618 | line="" |
---|
| 2619 | grep "%depository_path" $config_file > tmp_mrun |
---|
| 2620 | while read line |
---|
| 2621 | do |
---|
| 2622 | if [[ "$line" != "" && $(echo $line | cut -c1) != "#" ]] |
---|
| 2623 | then |
---|
| 2624 | if [[ "$(echo $line | cut -d" " -s -f3)" = "" ]] |
---|
| 2625 | then |
---|
| 2626 | global_depository_path=`echo $line | cut -d" " -s -f2` |
---|
| 2627 | fi |
---|
| 2628 | fi |
---|
| 2629 | done < tmp_mrun |
---|
| 2630 | |
---|
| 2631 | line="" |
---|
| 2632 | grep " $localhost" $config_file | grep "%depository_path" > tmp_mrun |
---|
| 2633 | while read line |
---|
| 2634 | do |
---|
| 2635 | if [[ "$line" != "" && $(echo $line | cut -c1) != "#" ]] |
---|
| 2636 | then |
---|
| 2637 | if [[ "$(echo $line | cut -d" " -s -f4)" = "$cond1" && "$(echo $line | cut -d" " -s -f5)" = "$cond2" ]] |
---|
| 2638 | then |
---|
| 2639 | local_depository_path=`echo $line | cut -d" " -s -f2` |
---|
| 2640 | fi |
---|
| 2641 | fi |
---|
| 2642 | done < tmp_mrun |
---|
| 2643 | |
---|
| 2644 | if [[ "$local_depository_path" = "" ]] |
---|
| 2645 | then |
---|
| 2646 | if [[ "$global_depository_path" != "" ]] |
---|
| 2647 | then |
---|
| 2648 | local_depository_path=$global_depository_path |
---|
| 2649 | else |
---|
| 2650 | printf "\n\n +++ no depository path found in configuration file" |
---|
| 2651 | printf "\n for local host \"$localhost\" " |
---|
| 2652 | printf "\n please set \"\%depository_path\" in configuration file\n" |
---|
| 2653 | locat=config_file; exit |
---|
| 2654 | fi |
---|
| 2655 | fi |
---|
| 2656 | eval local_depository_path=$local_depository_path |
---|
| 2657 | [[ "$cond1" != "" ]] && local_depository_path=${local_depository_path}_$cond1 |
---|
| 2658 | [[ "$cond2" != "" ]] && local_depository_path=${local_depository_path}_$cond2 |
---|
| 2659 | |
---|
| 2660 | |
---|
| 2661 | basename=`echo $mainprog | cut -f1 -d"."` |
---|
| 2662 | eval make_depository=${local_depository_path}/${basename}_current_version.tar |
---|
| 2663 | if [[ ! -f $make_depository ]] |
---|
| 2664 | then |
---|
| 2665 | printf "\n" |
---|
| 2666 | printf "\n *** WARNING: make depository \"$make_depository\" not found" |
---|
| 2667 | printf "\n \"make\" will fail, if the Makefile or other source files are missing\n" |
---|
| 2668 | fi |
---|
| 2669 | |
---|
| 2670 | fi |
---|
| 2671 | |
---|
| 2672 | |
---|
[1289] | 2673 | # NOW PERFORM THOSE ACTIONS REQUIRED TO EXECUTE THE PROGRAM (PALM) ON THIS MACHINE |
---|
| 2674 | # (COMPILING/LINKING, EXECUTING, COPYING I/O FILES) |
---|
[1] | 2675 | if [[ $do_batch = false ]] |
---|
| 2676 | then |
---|
| 2677 | |
---|
| 2678 | |
---|
[1289] | 2679 | # CREATE THE TEMPORARY WORKING DIRECTORY |
---|
[1] | 2680 | mkdir -p $TEMPDIR |
---|
| 2681 | chmod go+rx $TEMPDIR |
---|
| 2682 | tmpcreate=true |
---|
| 2683 | |
---|
| 2684 | |
---|
[1289] | 2685 | # COPY EITHER THE COMPLETE SOURCE CODE FILES TO BE COMPILED OR THE EXECUTABLE |
---|
| 2686 | # INTO THE TEMPORARY WORKING DIRECTORY |
---|
[1] | 2687 | if [[ $do_compile = true ]] |
---|
| 2688 | then |
---|
| 2689 | |
---|
| 2690 | # ON NEC, COMPILATION IS DONE ON HOST CROSS VIA CROSS COMPILING |
---|
| 2691 | # CREATE A TEMPORARY DIRECTORY ON THAT MACHINE (HOME MOUNTED VIA NFS) |
---|
| 2692 | if [[ $localhost = nech ]] |
---|
| 2693 | then |
---|
| 2694 | TEMPDIR_COMPILE=$HOME/work/${usern}.$kennung |
---|
| 2695 | if mkdir -p $TEMPDIR_COMPILE |
---|
| 2696 | then |
---|
| 2697 | printf "\n *** \"$TEMPDIR_COMPILE\" " |
---|
| 2698 | printf "\n is generated as temporary directory for cross compiling\n" |
---|
| 2699 | else |
---|
| 2700 | printf "\n +++ creating directory \"$TEMPDIR_COMPILE\" " |
---|
| 2701 | printf "\n needed for cross compilation failed" |
---|
| 2702 | locat=compile |
---|
| 2703 | exit |
---|
| 2704 | fi |
---|
| 2705 | else |
---|
| 2706 | TEMPDIR_COMPILE=$TEMPDIR |
---|
| 2707 | fi |
---|
| 2708 | |
---|
[1199] | 2709 | cp $make_depository $TEMPDIR_COMPILE |
---|
| 2710 | cd $TEMPDIR_COMPILE |
---|
| 2711 | tar -xf $make_depository > /dev/null 2>&1 |
---|
| 2712 | cd - > /dev/null |
---|
[1] | 2713 | |
---|
[1255] | 2714 | # DUE TO UNKNOWN REASONS, COPY WITH cp COMMAND CREATES CORRUPT |
---|
| 2715 | # FILES ON CRAY XC30 SYSTEMS (HLRN III), rsync IS USED INSTEAD |
---|
[1281] | 2716 | if [[ $(echo $host | cut -c1-6) = lccray ]] |
---|
| 2717 | then |
---|
| 2718 | rsync -av -t SOURCES_FOR_RUN_$fname/* $TEMPDIR_COMPILE > /dev/null |
---|
| 2719 | else |
---|
| 2720 | cp SOURCES_FOR_RUN_$fname/* $TEMPDIR_COMPILE > /dev/null |
---|
| 2721 | fi |
---|
[82] | 2722 | |
---|
[1] | 2723 | else |
---|
[475] | 2724 | |
---|
[1] | 2725 | cp $executable ${TEMPDIR}/a.out |
---|
[475] | 2726 | |
---|
[1] | 2727 | fi |
---|
| 2728 | |
---|
| 2729 | |
---|
[1289] | 2730 | # CHANGE TO THE TEMPORARY WORKING DIRECTORY |
---|
[475] | 2731 | cd $TEMPDIR |
---|
[1] | 2732 | printf "\n *** changed to temporary directory: $TEMPDIR" |
---|
| 2733 | |
---|
| 2734 | |
---|
[1289] | 2735 | # THE FOLLOWING IS REQUIRED FPR AVS-OUTPUT WITH PALM ??? REMOVE ??? |
---|
| 2736 | # WRITE INFORMATIONS ABOUT THE OUTPUT-FILE CONNECTIONS TO A TEMPORARY FILE |
---|
| 2737 | # THIS FILE CAN LATER BE READ FROM USER-DEFINED CODE TO DETERMINE THE |
---|
| 2738 | # RELATION BETWEEN THE LOCAL TEMPORARY AND PERMANENT FILE NAMES |
---|
[1] | 2739 | (( i = 0 )) |
---|
| 2740 | while (( i < iout )) |
---|
| 2741 | do |
---|
| 2742 | (( i = i + 1 )) |
---|
| 2743 | if [[ "${actionout[$i]}" = tr || "${actionout[$i]}" = tra || "${actionout[$i]}" = trpe ]] |
---|
| 2744 | then |
---|
| 2745 | printf "${localout[$i]} ${actionout[$i]}\n${pathout[$i]}\n${localhost}_${fname}${endout[$i]}\n" >> OUTPUT_FILE_CONNECTIONS |
---|
| 2746 | else |
---|
| 2747 | printf "${localout[$i]} ${actionout[$i]}\n${pathout[$i]}\n${frelout[$i]}\n" >> OUTPUT_FILE_CONNECTIONS |
---|
| 2748 | fi |
---|
| 2749 | done |
---|
| 2750 | |
---|
| 2751 | |
---|
[1289] | 2752 | # IF REQUIRED, START WITH COMPILING |
---|
[1] | 2753 | if [[ $do_compile = true ]] |
---|
| 2754 | then |
---|
| 2755 | |
---|
| 2756 | |
---|
[1199] | 2757 | if [[ -f a.out ]] |
---|
[475] | 2758 | then |
---|
[82] | 2759 | |
---|
[1199] | 2760 | # EXECUTABLE WAS CREATED DURING INTERACTIVE CALL OF MRUN |
---|
| 2761 | printf "\n\n\n *** executable a.out found" |
---|
| 2762 | printf "\n no compilation required \n" |
---|
| 2763 | |
---|
[1] | 2764 | else |
---|
[807] | 2765 | |
---|
[1199] | 2766 | # COMPILING WITH MAKE (ON NEC COMPILER IS CALLED ON HOST CROSS) |
---|
[1289] | 2767 | printf "\n\n\n *** compilation starts \n$dashes\n" |
---|
[1199] | 2768 | printf " *** compilation with make using following options:\n" |
---|
| 2769 | printf " make depository: $make_depository" |
---|
| 2770 | if [[ "$mopts" != "" ]] |
---|
| 2771 | then |
---|
| 2772 | printf " make options: $mopts\n" |
---|
| 2773 | fi |
---|
| 2774 | printf " compilername: $compiler_name\n" |
---|
| 2775 | printf " compiler options: $fopts\n" |
---|
| 2776 | printf " preprocessor directives: $cpp_options \n" |
---|
| 2777 | printf " linker options: $lopts \n" |
---|
| 2778 | if [[ "$modules" != "" ]] |
---|
| 2779 | then |
---|
| 2780 | printf " modules to be load: $modules \n" |
---|
| 2781 | fi |
---|
| 2782 | printf " source code files: $source_list \n" |
---|
[1] | 2783 | |
---|
[1199] | 2784 | if [[ $localhost = nech ]] |
---|
| 2785 | then |
---|
| 2786 | ssh $SSH_PORTOPT 136.172.44.192 -l $usern "$init_cmds $module_calls cd \$HOME/work/${usern}.$kennung; sxmake $mopts -f Makefile PROG=a.out F90=$compiler_name COPT=\"$cpp_options\" F90FLAGS=\"$fopts\" LDFLAGS=\"$lopts\" " |
---|
| 2787 | cp $TEMPDIR_COMPILE/a.out . |
---|
| 2788 | [[ $? != 0 ]] && compile_error=true |
---|
| 2789 | rm -rf $TEMPDIR_COMPILE |
---|
| 2790 | elif [[ $localhost = ibmh ]] |
---|
| 2791 | then |
---|
| 2792 | printf " compiler is called via ssh on \"plogin1\" \n" |
---|
| 2793 | ssh $SSH_PORTOPT plogin1 -l $usern "$init_cmds export PATH=/sw/ibm/xlf/13.1.0.8/usr/bin:$PATH; $module_calls cd $TEMPDIR; make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT=\"$cpp_options\" F90FLAGS=\"$fopts\" LDFLAGS=\"$lopts\" " |
---|
| 2794 | [[ ! -f a.out ]] && compile_error=true |
---|
[1289] | 2795 | continue # STATUS=1, IF a.out EXISTS |
---|
[1199] | 2796 | elif [[ $localhost = lcflow ]] |
---|
| 2797 | then |
---|
| 2798 | printf " compiler is called via ssh on \"flow\" \n" |
---|
[1201] | 2799 | /usr/bin/ssh $SSH_PORTOPT flow02.hpc.uni-oldenburg.de -l $usern "$init_cmds $module_calls cd $TEMPDIR; make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT=\"$cpp_options\" F90FLAGS=\"$fopts\" LDFLAGS=\"$lopts\" " |
---|
[1272] | 2800 | check_for_file=`/usr/bin/ssh $SSH_PORTOPT flow02.hpc.uni-oldenburg.de -l $usern "ls $TEMPDIR/a.out 2> /dev/null"` |
---|
| 2801 | [[ "$check_for_file" = "" ]] && compile_error=true |
---|
[1289] | 2802 | continue # STATUS=1, IF a.out EXISTS |
---|
[1274] | 2803 | elif [[ $localhost = lccrayb || $localhost = lccrayf || $localhost = lccrayh ]] |
---|
[1199] | 2804 | then |
---|
| 2805 | make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts" |
---|
| 2806 | else |
---|
| 2807 | [[ "$init_cmds" != "" ]] && eval $init_cmds |
---|
| 2808 | [[ "$module_calls" != "" ]] && eval $module_calls |
---|
| 2809 | make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts" |
---|
| 2810 | fi |
---|
[181] | 2811 | |
---|
[1199] | 2812 | if [[ $? != 0 || "$compile_error" = true || "$module_compile_error" = true ]] |
---|
| 2813 | then |
---|
| 2814 | printf "\n +++ error occured while compiling or linking" |
---|
| 2815 | locat=compile |
---|
| 2816 | |
---|
[181] | 2817 | exit |
---|
[1199] | 2818 | else |
---|
[1289] | 2819 | printf "$dashes\n *** compilation finished \n" |
---|
[1199] | 2820 | fi |
---|
| 2821 | |
---|
[1] | 2822 | fi |
---|
[1199] | 2823 | |
---|
[1] | 2824 | fi |
---|
| 2825 | |
---|
| 2826 | |
---|
[1289] | 2827 | # PROVIDE THE INPUT FILES |
---|
| 2828 | # LOOP OVER ALL ACTIVATED FILES (LISTED IN THE CONFIGURATION FILE) |
---|
[1] | 2829 | (( i = 0 )) |
---|
| 2830 | while (( i < iin )) |
---|
| 2831 | do |
---|
| 2832 | (( i = i + 1 )) |
---|
| 2833 | if (( i == 1 )) |
---|
| 2834 | then |
---|
[1289] | 2835 | printf "\n\n *** providing INPUT-files:\n$dashes" |
---|
[1] | 2836 | fi |
---|
| 2837 | |
---|
| 2838 | |
---|
[1289] | 2839 | # SKIP OPTIONAL FILES, IF THEY DO NOT EXIST |
---|
[1] | 2840 | if [[ "${transin[$i]}" = unavailable ]] |
---|
| 2841 | then |
---|
| 2842 | if [[ "${extin[$i]}" = "" || "${extin[$i]}" = " " ]] |
---|
| 2843 | then |
---|
| 2844 | printf "\n +++ WARNING: input file \"${pathin[$i]}/${afname}${endin[$i]}\" " |
---|
| 2845 | printf "\n is not available!" |
---|
| 2846 | else |
---|
| 2847 | printf "\n +++ WARNING: input file \"${pathin[$i]}/${afname}${endin[$i]}.${extin[$i]}\" " |
---|
| 2848 | printf "\n is not available!" |
---|
| 2849 | fi |
---|
| 2850 | continue |
---|
| 2851 | fi |
---|
| 2852 | |
---|
[1289] | 2853 | # CHECK FOR SINGLE FILE (SERIAL RUN) OR DIRECTORY (ONE FILE PER CORE FOR PARELLEL EXECUTION) |
---|
[1] | 2854 | files_for_pes=false; datentyp=file |
---|
| 2855 | if [[ "${actionin[$i]}" = pe && -n $numprocs ]] |
---|
| 2856 | then |
---|
| 2857 | files_for_pes=true; datentyp=directory |
---|
| 2858 | actionin[$i]="" |
---|
| 2859 | elif [[ "${actionin[$i]}" = pe && ! -n $numprocs ]] |
---|
| 2860 | then |
---|
| 2861 | actionin[$i]="" |
---|
| 2862 | elif [[ "${actionin[$i]}" = arpe && -n $numprocs ]] |
---|
| 2863 | then |
---|
| 2864 | files_for_pes=true; datentyp=directory |
---|
| 2865 | actionin[$i]="ar" |
---|
| 2866 | elif [[ "${actionin[$i]}" = arpe && ! -n $numprocs ]] |
---|
| 2867 | then |
---|
| 2868 | actionin[$i]="ar" |
---|
| 2869 | elif [[ "${actionin[$i]}" = flpe && -n $numprocs ]] |
---|
| 2870 | then |
---|
| 2871 | files_for_pes=true; datentyp=directory |
---|
| 2872 | actionin[$i]="fl" |
---|
| 2873 | elif [[ "${actionin[$i]}" = flpe && ! -n $numprocs ]] |
---|
| 2874 | then |
---|
| 2875 | actionin[$i]="fl" |
---|
| 2876 | fi |
---|
| 2877 | |
---|
| 2878 | if [[ $files_for_pes = true ]] |
---|
| 2879 | then |
---|
| 2880 | printf "\n >>> INPUT: ${absnamein[$i]}/.... to ${localin[$i]}" |
---|
| 2881 | else |
---|
| 2882 | printf "\n >>> INPUT: ${absnamein[$i]} to ${localin[$i]}" |
---|
| 2883 | fi |
---|
| 2884 | |
---|
[1289] | 2885 | # INPUT-FILE FOR A RESTART RUN. |
---|
| 2886 | # CHECK, IF THIS FILE STILL EXISTS ON THE TEMPORARY DATA DIRECTORY. |
---|
| 2887 | # IF NOT, TRY TO GET IT FROM THE ARCHIVE SYSTEM |
---|
[1] | 2888 | if [[ "${actionin[$i]}" = fl ]] |
---|
| 2889 | then |
---|
| 2890 | printf "\n $datentyp will be fetched from temporary directory \"${tmp_data_catalog}\" !" |
---|
| 2891 | if [[ $files_for_pes = false ]] |
---|
| 2892 | then |
---|
| 2893 | if [[ -f "$tmp_data_catalog/${frelin[$i]}" ]] |
---|
| 2894 | then |
---|
| 2895 | ln $tmp_data_catalog/${frelin[$i]} ${localin[$i]} |
---|
| 2896 | got_tmp[$i]=true |
---|
| 2897 | elif [[ -f "$WORK/${frelin[$i]}" && $ignore_archive_error = true ]] |
---|
| 2898 | then |
---|
| 2899 | printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" !" |
---|
| 2900 | printf "\n *** trying to use backup copy in \"$WORK\" " |
---|
| 2901 | cp $WORK/${frelin[$i]} ${localin[$i]} |
---|
| 2902 | else |
---|
| 2903 | printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" " |
---|
| 2904 | printf "\n or \"$tmp_data_catalog\" does not exist!" |
---|
| 2905 | printf "\n *** trying to get copy from archive" |
---|
| 2906 | actionin[$i]=ar |
---|
| 2907 | fi |
---|
| 2908 | else |
---|
| 2909 | if [[ -d "$tmp_data_catalog/${frelin[$i]}" ]] |
---|
| 2910 | then |
---|
| 2911 | mkdir ${localin[$i]} |
---|
[149] | 2912 | cd $tmp_data_catalog/${frelin[$i]} |
---|
| 2913 | for file in $(ls *) |
---|
| 2914 | do |
---|
| 2915 | ln $file $TEMPDIR/${localin[$i]} |
---|
| 2916 | done |
---|
| 2917 | cd $TEMPDIR |
---|
[1] | 2918 | got_tmp[$i]=true |
---|
| 2919 | elif [[ -d "$WORK/${frelin[$i]}" && $ignore_archive_error = true ]] |
---|
| 2920 | then |
---|
| 2921 | printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" !" |
---|
| 2922 | printf "\n *** trying to use backup copy in \"$WORK\" " |
---|
| 2923 | cp -r $WORK/${frelin[$i]} ${localin[$i]} |
---|
| 2924 | else |
---|
| 2925 | printf "\n +++ $datentyp not found in \"$tmp_data_catalog\" " |
---|
| 2926 | printf "\n or \"$tmp_data_catalog\" does not exist!" |
---|
| 2927 | printf "\n *** trying to get copy from archive" |
---|
| 2928 | actionin[$i]=ar |
---|
| 2929 | fi |
---|
| 2930 | fi |
---|
| 2931 | fi |
---|
| 2932 | |
---|
| 2933 | |
---|
[1289] | 2934 | # FILE IS STORED ON THE ARCHIVE SYSTEM |
---|
[1] | 2935 | if [[ "${actionin[$i]}" = ar ]] |
---|
| 2936 | then |
---|
| 2937 | |
---|
| 2938 | if [[ $files_for_pes = false ]] |
---|
| 2939 | then |
---|
| 2940 | printf "\n file will be restored from archive-system ($archive_system)!" |
---|
| 2941 | else |
---|
| 2942 | printf "\n directory will be restored from archive-system ($archive_system)!" |
---|
| 2943 | fi |
---|
| 2944 | |
---|
| 2945 | file_restored=false |
---|
| 2946 | |
---|
| 2947 | if [[ $archive_system = asterix ]] |
---|
| 2948 | then |
---|
| 2949 | do_stagein=true |
---|
| 2950 | (( stagein_anz = 0 )) |
---|
| 2951 | while [[ $do_stagein = true ]] |
---|
| 2952 | do |
---|
| 2953 | if [[ $files_for_pes = false ]] |
---|
| 2954 | then |
---|
| 2955 | stagein -O ${frelin[$i]} > STAGEIN_OUTPUT |
---|
| 2956 | else |
---|
| 2957 | stagein -t -O ${frelin[$i]} > STAGEIN_OUTPUT |
---|
| 2958 | fi |
---|
| 2959 | cat STAGEIN_OUTPUT |
---|
| 2960 | if [[ $(grep -c "st.msg:i24" STAGEIN_OUTPUT) != 0 ]] |
---|
| 2961 | then |
---|
| 2962 | file_restored=true |
---|
| 2963 | do_stagein=false |
---|
| 2964 | else |
---|
| 2965 | (( stagein_anz = stagein_anz + 1 )) |
---|
| 2966 | if (( stagein_anz == 10 )) |
---|
| 2967 | then |
---|
| 2968 | printf "\n +++ stagein stoped after 10 tries" |
---|
| 2969 | locat=stage |
---|
| 2970 | exit |
---|
| 2971 | fi |
---|
| 2972 | printf "\n +++ restoring from archive failed, trying again:" |
---|
| 2973 | sleep 900 |
---|
| 2974 | fi |
---|
| 2975 | done |
---|
| 2976 | elif [[ $archive_system = DMF ]] |
---|
| 2977 | then |
---|
| 2978 | if [[ $files_for_pes = false ]] |
---|
| 2979 | then |
---|
| 2980 | printf "\n +++ restoring of single files impossible with $archive_system !\n" |
---|
| 2981 | locat=DMF |
---|
| 2982 | exit |
---|
| 2983 | else |
---|
| 2984 | find $ARCHIVE/${frelin[$i]} -type m -print | dmget |
---|
| 2985 | cp -r $ARCHIVE/${frelin[$i]} $PWD |
---|
| 2986 | file_restored=true |
---|
| 2987 | fi |
---|
| 2988 | elif [[ $archive_system = tivoli ]] |
---|
| 2989 | then |
---|
| 2990 | if [[ $files_for_pes = false ]] |
---|
| 2991 | then |
---|
[1289] | 2992 | ssh $SSH_PORTOPT $usern@bicedata.hlrn.de "cp $PERM/${frelin[$i]} $PWD" |
---|
[1] | 2993 | else |
---|
| 2994 | (( inode = 0 )) |
---|
| 2995 | while (( inode < nodes )) |
---|
| 2996 | do |
---|
[1289] | 2997 | ssh $SSH_PORTOPT $usern@bicedata.hlrn.de "cd $PWD; tar xf $PERM/${frelin[$i]}/${frelin[$i]}.node_$inode.tar" |
---|
[1] | 2998 | (( inode = inode + 1 )) |
---|
| 2999 | done |
---|
| 3000 | fi |
---|
| 3001 | file_restored=true |
---|
| 3002 | elif [[ $archive_system = ut ]] |
---|
| 3003 | then |
---|
| 3004 | if [[ $files_for_pes = false ]] |
---|
| 3005 | then |
---|
| 3006 | cp $UT/${frelin[$i]} . |
---|
| 3007 | else |
---|
| 3008 | (( inode = 0 )) |
---|
| 3009 | while (( inode < nodes )) |
---|
| 3010 | do |
---|
| 3011 | tar xf $UT/${frelin[$i]}/${frelin[$i]}.node_$inode.tar |
---|
| 3012 | (( inode = inode + 1 )) |
---|
| 3013 | done |
---|
| 3014 | fi |
---|
| 3015 | file_restored=true |
---|
| 3016 | else |
---|
| 3017 | printf "\n +++ archive_system=\"$archive_system\" restore impossible!" |
---|
| 3018 | locat=rearchive |
---|
| 3019 | exit |
---|
| 3020 | fi |
---|
| 3021 | |
---|
| 3022 | if [[ $file_restored = true ]] |
---|
| 3023 | then |
---|
| 3024 | |
---|
[1289] | 3025 | # PUT FILE ON THE TEMPORARY DATA DIRECTORY TOO. |
---|
| 3026 | # THIS WILL MAKE FILE ACCESS EASIER FOR LATER RUNS |
---|
[1] | 3027 | [[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog; chmod g+rx $tmp_data_catalog |
---|
| 3028 | if [[ $files_for_pes = false ]] |
---|
| 3029 | then |
---|
| 3030 | ln -f ${frelin[$i]} $tmp_data_catalog/${frelin[$i]} |
---|
| 3031 | else |
---|
| 3032 | mkdir $tmp_data_catalog/${frelin[$i]} |
---|
| 3033 | ln -f ${frelin[$i]}/* $tmp_data_catalog/${frelin[$i]} |
---|
| 3034 | fi |
---|
| 3035 | got_tmp[$i]=true |
---|
| 3036 | |
---|
[1289] | 3037 | # PROVIDE THE FILE UNDER ITS LOCAL NAME |
---|
[1] | 3038 | mv ${frelin[$i]} ${localin[$i]} |
---|
| 3039 | |
---|
| 3040 | fi |
---|
| 3041 | fi |
---|
| 3042 | |
---|
| 3043 | |
---|
[1289] | 3044 | # FILE IS STORED IN THE RESPECTIVE DIRECTORY GIVEN IN THE CONFIGURATION FILE |
---|
[1] | 3045 | if [[ "${actionin[$i]}" = "" || "${actionin[$i]}" = "di" || "${actionin[$i]}" = "npe" ]] |
---|
| 3046 | then |
---|
| 3047 | |
---|
| 3048 | if [[ "${actionin[$i]}" = "npe" && -n $numprocs ]] |
---|
| 3049 | then |
---|
| 3050 | |
---|
[1289] | 3051 | # FILE COPIES ARE PROVIDED FOR ALL CORES |
---|
| 3052 | # EACH FILE GETS A UNIQUE FILENAME WITH A FOUR DIGIT NUMBER |
---|
[1] | 3053 | printf "\n file will be provided for $numprocs processors" |
---|
| 3054 | mkdir ${localin[$i]} |
---|
| 3055 | ival=$numprocs |
---|
| 3056 | (( ii = 0 )) |
---|
| 3057 | while (( ii <= ival-1 )) |
---|
| 3058 | do |
---|
| 3059 | if (( ii < 10 )) |
---|
| 3060 | then |
---|
| 3061 | cp ${absnamein[$i]} ${localin[$i]}/_000$ii |
---|
| 3062 | elif (( ii < 100 )) |
---|
| 3063 | then |
---|
| 3064 | cp ${absnamein[$i]} ${localin[$i]}/_00$ii |
---|
| 3065 | elif (( ii < 1000 )) |
---|
| 3066 | then |
---|
| 3067 | cp ${absnamein[$i]} ${localin[$i]}/_0$ii |
---|
| 3068 | else |
---|
| 3069 | cp ${absnamein[$i]} ${localin[$i]}/_$ii |
---|
| 3070 | fi |
---|
| 3071 | (( ii = ii + 1 )) |
---|
| 3072 | done |
---|
| 3073 | |
---|
| 3074 | else |
---|
| 3075 | |
---|
| 3076 | if [[ $files_for_pes = true ]] |
---|
| 3077 | then |
---|
| 3078 | |
---|
[1289] | 3079 | # PROVIDE FILES FOR EACH CORE |
---|
| 3080 | # FIRST CREATE THE LOCAL DIRECTORY, THEN COPY FILES |
---|
| 3081 | # FROM THE PERMANENT DIRECTORY BY LINKING THEM TO THE LOCAL ONE |
---|
[1] | 3082 | printf "\n providing $numprocs files for the respective processors" |
---|
| 3083 | mkdir ${localin[$i]} |
---|
[183] | 3084 | if [[ $link_local_input = true ]] |
---|
| 3085 | then |
---|
| 3086 | printf " using ln -f\n" |
---|
| 3087 | cd ${absnamein[$i]} |
---|
| 3088 | for file in $(ls *) |
---|
| 3089 | do |
---|
| 3090 | ln -f $file ${localin[$i]} |
---|
| 3091 | done |
---|
| 3092 | cd $TEMPDIR |
---|
| 3093 | fi |
---|
[1289] | 3094 | |
---|
| 3095 | # IF "ln -f" FAILED OR IF "$link_local_input = false" DO A NORMAL "cp -r" |
---|
[183] | 3096 | if [[ ! -f "${localin[$i]}/_0000" ]] |
---|
| 3097 | then |
---|
| 3098 | if [[ $link_local_input = true ]] |
---|
| 3099 | then |
---|
| 3100 | printf " ln failed for .../_0000, using cp...\n" |
---|
| 3101 | fi |
---|
| 3102 | cp -r ${absnamein[$i]}/* ${localin[$i]} |
---|
| 3103 | fi |
---|
[1] | 3104 | |
---|
| 3105 | else |
---|
[1289] | 3106 | |
---|
| 3107 | # PROVIDE FILE FOR RUNS ON A SINGLE CORE |
---|
[183] | 3108 | if [[ $link_local_input = true ]] |
---|
| 3109 | then |
---|
| 3110 | printf " using ln -f\n" |
---|
| 3111 | ln -f ${absnamein[$i]} ${localin[$i]} |
---|
| 3112 | fi |
---|
| 3113 | # If "ln -f" fails of if "$link_local_input = false" do a normal "cp" |
---|
| 3114 | if [[ ! -f "${localin[$i]}" ]] |
---|
| 3115 | then |
---|
| 3116 | if [[ $link_local_input = true ]] |
---|
| 3117 | then |
---|
| 3118 | printf " ln failed, using cp...\n" |
---|
| 3119 | fi |
---|
| 3120 | cp ${absnamein[$i]} ${localin[$i]} |
---|
| 3121 | fi |
---|
[1] | 3122 | fi |
---|
| 3123 | fi |
---|
| 3124 | fi |
---|
| 3125 | |
---|
| 3126 | done |
---|
| 3127 | if (( i != 0 )) |
---|
| 3128 | then |
---|
[1289] | 3129 | printf "\n$dashes\n *** all INPUT-files provided \n" |
---|
[1] | 3130 | fi |
---|
| 3131 | |
---|
| 3132 | |
---|
[1289] | 3133 | # EXECUTE INPUT-COMMANDS GIVEN IN THE CONFIGURATION FILE |
---|
[1] | 3134 | (( i = 0 )) |
---|
| 3135 | while (( i < iic )) |
---|
| 3136 | do |
---|
| 3137 | (( i = i + 1 )) |
---|
| 3138 | if (( i == 1 )) |
---|
| 3139 | then |
---|
[1289] | 3140 | printf "\n\n *** execution of INPUT-commands:\n$dashes" |
---|
[1] | 3141 | fi |
---|
| 3142 | printf "\n >>> ${in_command[$i]}" |
---|
| 3143 | eval ${in_command[$i]} |
---|
| 3144 | if (( i == iic )) |
---|
| 3145 | then |
---|
[1289] | 3146 | printf "\n$dashes\n" |
---|
[1] | 3147 | fi |
---|
| 3148 | done |
---|
| 3149 | |
---|
| 3150 | |
---|
[1289] | 3151 | # SET THE REMAINING CPU-TIME |
---|
[1] | 3152 | cpurest=${cpumax}. |
---|
| 3153 | |
---|
| 3154 | |
---|
[260] | 3155 | # START DVR STREAMING SERVER |
---|
| 3156 | if [[ $(echo $package_list | grep -c dvrp_graphics) != 0 ]] |
---|
| 3157 | then |
---|
| 3158 | if [[ "$dvr_server" != "" ]] |
---|
| 3159 | then |
---|
| 3160 | |
---|
| 3161 | printf "\n\n *** preparing the dvr streaming server configuration file" |
---|
| 3162 | |
---|
[1289] | 3163 | # CHECK, IF A DVR SERVER IS ALREADY RUNNING |
---|
[260] | 3164 | running_dvrserver_id=`echo $(ps -edaf | grep .dvrserver.config | grep -v grep) | cut -d" " -f2` |
---|
| 3165 | if [[ "$running_dvrserver_id" != "" ]] |
---|
| 3166 | then |
---|
| 3167 | |
---|
[261] | 3168 | printf "\n\n +++ WARNING: A dvr server with id=$running_dvrserver_id is already running!" |
---|
[260] | 3169 | printf "\n This server is used instead starting a new one!" |
---|
[261] | 3170 | printf "\n If required, script \"process_dvr_output\" has to be run manually." |
---|
[260] | 3171 | |
---|
| 3172 | else |
---|
| 3173 | |
---|
| 3174 | # COPY CONFIGURATION FILE FOR STREAMING SERVER FROM REPOSITORY TO HERE |
---|
| 3175 | if [[ -f ${PALM_BIN}/.dvrserver.config ]] |
---|
| 3176 | then |
---|
| 3177 | cp ${PALM_BIN}/.dvrserver.config . |
---|
| 3178 | |
---|
[1289] | 3179 | # ENTERING THE BASEDIR, UID AND GID INTO THIS FILE |
---|
[260] | 3180 | user_id=`id -u` |
---|
| 3181 | group_id=`id -g` |
---|
[1289] | 3182 | |
---|
| 3183 | # "&" IS REQUIRED AS A SEPERATOR, BECAUSE TEMPDIR CONTAINS "/" |
---|
[260] | 3184 | sed "s&<replace by dvr data directory>&${TEMPDIR}&g" .dvrserver.config > .dvrserver.1 |
---|
| 3185 | sed "s/<replace by user id>/$user_id/g" .dvrserver.1 > .dvrserver.2 |
---|
| 3186 | sed "s/<replace by group id>/$group_id/g" .dvrserver.2 > .dvrserver.3 |
---|
| 3187 | mv .dvrserver.3 .dvrserver.config |
---|
| 3188 | rm .dvrserver.1 .dvrserver.2 |
---|
| 3189 | |
---|
[1289] | 3190 | # START DVR SERVER IN BACKGROUND, GET HIS ID AND PRINT ON TERMINAL |
---|
[260] | 3191 | $dvr_server .dvrserver.config >> DVR_LOGFILE 2>&1 & |
---|
| 3192 | dvrserver_id=`echo $(ps -edaf | grep .dvrserver.config) | cut -d" " -f2` |
---|
| 3193 | printf "\n *** streaming server with id=$dvrserver_id is started in background" |
---|
| 3194 | local_dvrserver_running=.TRUE. |
---|
| 3195 | else |
---|
| 3196 | printf "\n +++ missing file \".dvrserver.config\" in directory:" |
---|
| 3197 | printf "\n \"$PALM_BIN\" " |
---|
| 3198 | locat=dvr |
---|
| 3199 | exit |
---|
| 3200 | fi |
---|
| 3201 | |
---|
| 3202 | fi |
---|
| 3203 | |
---|
| 3204 | else |
---|
| 3205 | printf "\n\n --- INFORMATIVE: no dvr streaming server will be started" |
---|
| 3206 | fi |
---|
| 3207 | fi |
---|
| 3208 | |
---|
| 3209 | |
---|
[1289] | 3210 | # CREATE THE NAMELIST-FILE WITH VALUES OF ENVIRONMENT-VARIABLES REQUIRED BY PALM |
---|
| 3211 | # (FILE ENVPAR WILL BE READ BY PALM) |
---|
[260] | 3212 | cat > ENVPAR << %%END%% |
---|
| 3213 | &envpar run_identifier = '$fname', host = '$localhost', |
---|
| 3214 | write_binary = '$write_binary', tasks_per_node = $tasks_per_node, |
---|
[759] | 3215 | maximum_parallel_io_streams = $maximum_parallel_io_streams, |
---|
[260] | 3216 | maximum_cpu_time_allowed = ${cpumax}., |
---|
| 3217 | revision = '$global_revision', |
---|
[1402] | 3218 | local_dvrserver_running = $local_dvrserver_running, |
---|
| 3219 | batch_job = $batch_job / |
---|
[260] | 3220 | |
---|
| 3221 | %%END%% |
---|
| 3222 | |
---|
| 3223 | |
---|
[1289] | 3224 | # STARTING THE EXECUTABLE |
---|
| 3225 | printf "\n\n *** execution starts in directory\n \"`pwd`\"\n$dashes\n" |
---|
[1] | 3226 | PATH=$PATH:$TEMPDIR |
---|
| 3227 | |
---|
[1289] | 3228 | # MPI DEBUG OPTION (ARGUMENT CHECKING, SLOWS DOWN EXECUTION DUE TO INCREASED LATENCY) |
---|
[359] | 3229 | if [[ "$mpi_debug" = true ]] |
---|
| 3230 | then |
---|
| 3231 | export MPI_CHECK_ARGS=1 |
---|
| 3232 | printf "\n +++ MPI_CHECK_ARGS=$MPI_CHECK_ARGS" |
---|
| 3233 | fi |
---|
| 3234 | |
---|
[693] | 3235 | if [[ "$totalview" = true ]] |
---|
| 3236 | then |
---|
| 3237 | printf "\n *** totalview debugger will be used" |
---|
| 3238 | tv_opt="-tv" |
---|
| 3239 | else |
---|
| 3240 | tv_opt="" |
---|
| 3241 | fi |
---|
| 3242 | |
---|
[1] | 3243 | if [[ "$cond1" = debug || "$cond2" = debug ]] |
---|
| 3244 | then |
---|
| 3245 | if [[ "$ENVIRONMENT" = BATCH ]] |
---|
| 3246 | then |
---|
[1289] | 3247 | continue |
---|
[1] | 3248 | fi |
---|
[1096] | 3249 | if [[ $localhost = ibmh ]] |
---|
[1] | 3250 | then |
---|
| 3251 | |
---|
| 3252 | # SETUP THE IBM MPI ENVIRONMENT |
---|
| 3253 | export MP_SHARED_MEMORY=yes |
---|
| 3254 | export AIXTHREADS_SCOPE=S |
---|
| 3255 | export OMP_NUM_THREADS=$threads_per_task |
---|
| 3256 | export AUTHSTATE=files |
---|
| 3257 | export XLFRTEOPTS="nlwidth=132:err_recovery=no" # RECORD-LENGTH OF NAMELIST-OUTPUT |
---|
| 3258 | |
---|
| 3259 | # FOLLOWING OPTIONS ARE MANDATORY FOR TOTALVIEW |
---|
| 3260 | export MP_ADAPTER_USE=shared |
---|
| 3261 | export MP_CPU_USE=multiple |
---|
| 3262 | export MP_TIMEOUT=1200 |
---|
| 3263 | |
---|
| 3264 | unset MP_TASK_AFFINITY |
---|
| 3265 | |
---|
| 3266 | # SO FAR, TOTALVIEW NEEDS HOSTFILE MECHANISM FOR EXECUTION |
---|
| 3267 | #(( ii = 1 )) |
---|
| 3268 | #while (( ii <= $numprocs )) |
---|
| 3269 | #do |
---|
| 3270 | # echo $localhost_realname >> hostfile |
---|
| 3271 | # (( ii = ii + 1 )) |
---|
| 3272 | #done |
---|
| 3273 | #export MP_HOSTFILE=hostfile |
---|
| 3274 | |
---|
| 3275 | if [[ "$LOADLBATCH" = yes ]] |
---|
| 3276 | then |
---|
| 3277 | totalview poe a.out $ROPTS |
---|
| 3278 | else |
---|
| 3279 | echo totalview poe -a a.out -procs $numprocs -rmpool 0 -nodes 1 $ROPTS |
---|
| 3280 | export TVDSVRLAUNCHCMD=ssh |
---|
| 3281 | totalview poe -a a.out -procs $numprocs -rmpool 0 -nodes 1 $ROPTS |
---|
| 3282 | fi |
---|
[622] | 3283 | |
---|
[1295] | 3284 | fi # END DEBUG MODE |
---|
| 3285 | |
---|
[1] | 3286 | else |
---|
[622] | 3287 | |
---|
[1289] | 3288 | # NORMAL EXECUTION |
---|
[1] | 3289 | if [[ -n $numprocs ]] |
---|
| 3290 | then |
---|
[1289] | 3291 | |
---|
[1] | 3292 | # RUNNING THE PROGRAM ON PARALLEL MACHINES |
---|
| 3293 | if [[ $(echo $host | cut -c1-3) = ibm ]] |
---|
| 3294 | then |
---|
[1289] | 3295 | |
---|
[1] | 3296 | # SETUP THE IBM MPI ENVIRONMENT |
---|
[693] | 3297 | if [[ $host != ibmh && $host != ibmkisti ]] |
---|
[312] | 3298 | then |
---|
| 3299 | export MP_SHARED_MEMORY=yes |
---|
| 3300 | export AIXTHREAD_SCOPE=S |
---|
| 3301 | export OMP_NUM_THREADS=$threads_per_task |
---|
| 3302 | export XLSMPOPTS="spins=0:yields=0:stack=20000000" |
---|
| 3303 | export AUTHSTATE=files |
---|
| 3304 | export XLFRTEOPTS="nlwidth=132:err_recovery=no" # RECORD-LENGTH OF NAMELIST-OUTPUT |
---|
| 3305 | # export MP_PRINTENV=yes |
---|
[1] | 3306 | |
---|
[1289] | 3307 | # TUNING-VARIABLES TO IMPROVE COMMUNICATION SPEED |
---|
| 3308 | # DO NOT SHOW SIGNIFICANT EFFECTS (SEP 04, FEDERATION-SWITCH) |
---|
[312] | 3309 | export MP_WAIT_MODE=poll |
---|
| 3310 | [[ $node_usage = not_shared ]] && export MP_SINGLE_THREAD=yes |
---|
| 3311 | fi |
---|
[693] | 3312 | |
---|
| 3313 | if [[ $host = ibmkisti ]] |
---|
| 3314 | then |
---|
| 3315 | export LANG=en_US |
---|
| 3316 | export MP_SHARED_MEMORY=yes |
---|
[696] | 3317 | if [[ $threads_per_task = 1 ]] |
---|
| 3318 | then |
---|
| 3319 | export MP_SINGLE_THREAD=yes |
---|
| 3320 | export MEMORY_AFFINITY=MCM |
---|
| 3321 | else |
---|
| 3322 | export OMP_NUM_THREADS=$threads_per_task |
---|
| 3323 | fi |
---|
[693] | 3324 | fi |
---|
| 3325 | |
---|
[1] | 3326 | if [[ "$LOADLBATCH" = yes ]] |
---|
| 3327 | then |
---|
| 3328 | printf "\n--- Control: OMP_NUM_THREADS = \"$OMP_NUM_THREADS\" \n" |
---|
| 3329 | if [[ "$cond1" = hpmcount || "$cond2" = hpmcount ]] |
---|
| 3330 | then |
---|
[102] | 3331 | /opt/optibm/HPM_2_4_1/bin/hpmcount a.out $ROPTS |
---|
[1] | 3332 | else |
---|
[343] | 3333 | if [[ $run_coupled_model = false ]] |
---|
| 3334 | then |
---|
| 3335 | if [[ "$ocean_file_appendix" = true ]] |
---|
| 3336 | then |
---|
| 3337 | echo "precursor_ocean" > runfile_atmos |
---|
| 3338 | else |
---|
| 3339 | echo "precursor_atmos" > runfile_atmos |
---|
| 3340 | fi |
---|
| 3341 | else |
---|
| 3342 | (( iia = $numprocs_atmos / $threads_per_task )) |
---|
| 3343 | (( iio = $numprocs_ocean / $threads_per_task )) |
---|
| 3344 | printf "\n coupled run ($iia atmosphere, $iio ocean)" |
---|
| 3345 | printf "\n using $coupled_mode coupling" |
---|
| 3346 | printf "\n\n" |
---|
| 3347 | echo "coupled_run $iia $iio" > runfile_atmos |
---|
| 3348 | fi |
---|
| 3349 | poe ./a.out $ROPTS < runfile_atmos |
---|
[1] | 3350 | fi |
---|
| 3351 | else |
---|
[622] | 3352 | if [[ $localhost = ibmh || $localhost = ibms ]] |
---|
[1] | 3353 | then |
---|
[102] | 3354 | poe a.out -procs $numprocs -nodes 1 -rmpool 0 $ROPTS |
---|
[1289] | 3355 | elif [[ $localhost = ibmkisti || $localhost = ibmku ]] |
---|
[1] | 3356 | then |
---|
| 3357 | if [[ -f $hostfile ]] |
---|
| 3358 | then |
---|
| 3359 | cp $hostfile hostfile |
---|
| 3360 | else |
---|
| 3361 | (( ii = 1 )) |
---|
| 3362 | while (( ii <= $numprocs )) |
---|
| 3363 | do |
---|
| 3364 | echo $localhost_realname >> hostfile |
---|
| 3365 | (( ii = ii + 1 )) |
---|
| 3366 | done |
---|
| 3367 | fi |
---|
| 3368 | export MP_HOSTFILE=hostfile |
---|
[331] | 3369 | if [[ $run_coupled_model = false ]] |
---|
| 3370 | then |
---|
| 3371 | if [[ "$ocean_file_appendix" = true ]] |
---|
| 3372 | then |
---|
| 3373 | echo "precursor_ocean" > runfile_atmos |
---|
| 3374 | else |
---|
| 3375 | echo "precursor_atmos" > runfile_atmos |
---|
| 3376 | fi |
---|
| 3377 | else |
---|
| 3378 | (( iia = $numprocs_atmos / $threads_per_task )) |
---|
| 3379 | (( iio = $numprocs_ocean / $threads_per_task )) |
---|
| 3380 | printf "\n coupled run ($iia atmosphere, $iio ocean)" |
---|
| 3381 | printf "\n using $coupled_mode coupling" |
---|
| 3382 | printf "\n\n" |
---|
| 3383 | echo "coupled_run $iia $iio" > runfile_atmos |
---|
| 3384 | fi |
---|
| 3385 | |
---|
[1289] | 3386 | poe ./a.out -procs $numprocs $ROPTS < runfile_atmos |
---|
| 3387 | |
---|
[1] | 3388 | else |
---|
| 3389 | if [[ "$host_file" = "" ]] |
---|
| 3390 | then |
---|
| 3391 | printf "\n +++ no hostfile given in configuration file" |
---|
| 3392 | locat=config_file |
---|
| 3393 | exit |
---|
| 3394 | else |
---|
| 3395 | eval host_file=$host_file |
---|
| 3396 | fi |
---|
| 3397 | export MP_HOSTFILE=$host_file |
---|
[102] | 3398 | poe a.out -procs $numprocs -tasks_per_node $numprocs $ROPTS |
---|
[1] | 3399 | fi |
---|
| 3400 | fi |
---|
[1289] | 3401 | elif [[ $host = nech ]] |
---|
[1] | 3402 | then |
---|
| 3403 | (( ii = nodes )) |
---|
| 3404 | if [[ $ii = 1 ]] |
---|
| 3405 | then |
---|
| 3406 | export F_ERRCNT=0 # acceptable number of errors before program is stopped |
---|
| 3407 | export MPIPROGINF=YES |
---|
[61] | 3408 | # export F_TRACE=YES|FMT1|FMT2 # output of ftrace informations to job protocol |
---|
[1] | 3409 | echo "*** execution on single node with mpirun" |
---|
[102] | 3410 | mpirun -np $numprocs ./a.out $ROPTS |
---|
[1] | 3411 | else |
---|
| 3412 | (( i = 0 )) |
---|
| 3413 | while (( i < ii )) |
---|
| 3414 | do |
---|
| 3415 | echo "-h $i -p $tasks_per_node -e ./mpi_exec_shell" >> multinode_config |
---|
| 3416 | (( i = i + 1 )) |
---|
| 3417 | done |
---|
| 3418 | |
---|
| 3419 | echo "#!/bin/sh" > mpi_exec_shell |
---|
| 3420 | echo " " >> mpi_exec_shell |
---|
| 3421 | echo "set -u" >> mpi_exec_shell |
---|
| 3422 | echo "F_ERRCNT=0" >> mpi_exec_shell |
---|
| 3423 | echo "MPIPROGINV=YES" >> mpi_exec_shell |
---|
| 3424 | echo "OMP_NUM_THREADS=$threads_per_task" >> mpi_exec_shell |
---|
| 3425 | echo "cpurest=$cpurest" >> mpi_exec_shell |
---|
| 3426 | echo "fname=$fname" >> mpi_exec_shell |
---|
| 3427 | echo "localhost=$localhost" >> mpi_exec_shell |
---|
[1468] | 3428 | echo "return_address=$return_address" >> mpi_exec_shell |
---|
[1] | 3429 | echo "return_username=$return_username" >> mpi_exec_shell |
---|
| 3430 | echo "tasks_per_node=$tasks_per_node" >> mpi_exec_shell |
---|
| 3431 | echo "write_binary=$write_binary" >> mpi_exec_shell |
---|
| 3432 | echo "use_seperate_pe_for_dvrp_output=$use_seperate_pe_for_dvrp_output" >> mpi_exec_shell |
---|
| 3433 | echo " " >> mpi_exec_shell |
---|
| 3434 | echo "export F_ERRCNT" >> mpi_exec_shell |
---|
| 3435 | echo "export MPIPROGINV" >> mpi_exec_shell |
---|
| 3436 | echo "export OMP_NUM_THREADS" >> mpi_exec_shell |
---|
| 3437 | echo "export cpurest" >> mpi_exec_shell |
---|
| 3438 | echo "export fname" >> mpi_exec_shell |
---|
| 3439 | echo "export localhost" >> mpi_exec_shell |
---|
[1468] | 3440 | echo "export return_address" >> mpi_exec_shell |
---|
[1] | 3441 | echo "export return_username" >> mpi_exec_shell |
---|
| 3442 | echo "export tasks_per_node" >> mpi_exec_shell |
---|
| 3443 | echo "export write_binary" >> mpi_exec_shell |
---|
| 3444 | echo "export use_seperate_pe_for_dvrp_output" >> mpi_exec_shell |
---|
| 3445 | echo " " >> mpi_exec_shell |
---|
[102] | 3446 | echo "exec ./a.out" >> mpi_exec_shell |
---|
[1] | 3447 | |
---|
| 3448 | chmod u+x mpi_exec_shell |
---|
| 3449 | export MPIPROGINF=YES |
---|
| 3450 | mpirun -f multinode_config & |
---|
| 3451 | wait |
---|
| 3452 | |
---|
| 3453 | fi |
---|
[440] | 3454 | elif [[ $(echo $host | cut -c1-2) = lc && $host != lckyoto && $host != lctit ]] |
---|
[1] | 3455 | then |
---|
| 3456 | |
---|
| 3457 | # COPY HOSTFILE FROM SOURCE DIRECTORY OR CREATE IT, IF IT |
---|
| 3458 | # DOES NOT EXIST |
---|
[1289] | 3459 | if [[ $host != lccrayb &&$host != lccrayf && $host != lccrayh && $host != lckyuh && $host != lckyut ]] |
---|
[1] | 3460 | then |
---|
[179] | 3461 | if [[ -f $hostfile ]] |
---|
| 3462 | then |
---|
| 3463 | cp $hostfile hostfile |
---|
[746] | 3464 | (( ii = $numprocs / $threads_per_task )) |
---|
[179] | 3465 | else |
---|
| 3466 | (( ii = 1 )) |
---|
| 3467 | while (( ii <= $numprocs / $threads_per_task )) |
---|
| 3468 | do |
---|
| 3469 | echo $localhost_realname >> hostfile |
---|
| 3470 | (( ii = ii + 1 )) |
---|
| 3471 | done |
---|
| 3472 | fi |
---|
| 3473 | eval zeile=\"`head -n $ii hostfile`\" |
---|
| 3474 | printf "\n *** running on: $zeile" |
---|
[1] | 3475 | fi |
---|
[179] | 3476 | |
---|
[1] | 3477 | (( ii = $numprocs / $threads_per_task )) |
---|
| 3478 | export OMP_NUM_THREADS=$threads_per_task |
---|
[1289] | 3479 | |
---|
[1] | 3480 | if [[ $threads_per_task != 1 ]] |
---|
| 3481 | then |
---|
[1289] | 3482 | # INCREASE STACK SIZE TO UNLIMITED, BECAUSE OTHERWISE LARGE RUNS |
---|
| 3483 | # MAY ABORT |
---|
[1304] | 3484 | ulimit -s unlimited |
---|
[405] | 3485 | printf "\n threads per task: $threads_per_task stacksize: unlimited" |
---|
[1] | 3486 | fi |
---|
[102] | 3487 | if [[ $run_coupled_model = false ]] |
---|
[1] | 3488 | then |
---|
[291] | 3489 | if [[ "$ocean_file_appendix" = true ]] |
---|
| 3490 | then |
---|
| 3491 | echo "precursor_ocean" > runfile_atmos |
---|
| 3492 | else |
---|
| 3493 | echo "precursor_atmos" > runfile_atmos |
---|
| 3494 | fi |
---|
[102] | 3495 | printf "\n\n" |
---|
[388] | 3496 | |
---|
[1289] | 3497 | if [[ $host = lccrayb || $host = lccrayh ]] |
---|
[1224] | 3498 | then |
---|
| 3499 | echo "--- aprun -n $ii -N $tasks_per_node a.out $ROPTS < runfile_atmos" |
---|
| 3500 | aprun -n $ii -N $tasks_per_node a.out $ROPTS < runfile_atmos |
---|
| 3501 | # aprun -n $ii -ss -r2 -j1 a.out $ROPTS < runfile_atmos |
---|
[1197] | 3502 | elif [[ $host = lccrayf ]] |
---|
| 3503 | then |
---|
[1420] | 3504 | aprun -j1 -n $ii -N $tasks_per_node -m ${memory}M a.out $ROPTS < runfile_atmos |
---|
[892] | 3505 | elif [[ $host = lcxe6 || $host = lcxt5m ]] |
---|
[179] | 3506 | then |
---|
[544] | 3507 | aprun -n $ii -N $tasks_per_node a.out $ROPTS < runfile_atmos |
---|
[755] | 3508 | elif [[ $host = lcflow ]] |
---|
| 3509 | then |
---|
[1201] | 3510 | mpirun -bootstrap sge -np $ii -env I_MPI_FABRICS shm:ofa a.out < runfile_atmos $ROPTS |
---|
[1021] | 3511 | elif [[ $host = lcsb ]] |
---|
| 3512 | then |
---|
| 3513 | mpirun_rsh -hostfile $PBS_NODEFILE -np `cat $PBS_NODEFILE | wc -l` a.out < runfile_atmos $ROPTS |
---|
[1040] | 3514 | elif [[ $host = lckiaps ]] |
---|
| 3515 | then |
---|
| 3516 | mpirun -np $ii -f $PBS_NODEFILE a.out < runfile_atmos $ROPTS |
---|
[1090] | 3517 | elif [[ $host = lckyu* ]] |
---|
| 3518 | then |
---|
[1106] | 3519 | mpiexec -n $ii --stdin runfile_atmos ./a.out $ROPTS |
---|
[164] | 3520 | else |
---|
[1106] | 3521 | mpiexec -machinefile hostfile -n $ii a.out < runfile_atmos $ROPTS |
---|
[164] | 3522 | fi |
---|
[1] | 3523 | else |
---|
[164] | 3524 | |
---|
[1289] | 3525 | # CURRENTLY THERE IS NO FULL MPI-2 SUPPORT ON ICE AND XT4 |
---|
[206] | 3526 | (( iia = $numprocs_atmos / $threads_per_task )) |
---|
| 3527 | (( iio = $numprocs_ocean / $threads_per_task )) |
---|
| 3528 | printf "\n coupled run ($iia atmosphere, $iio ocean)" |
---|
| 3529 | printf "\n using $coupled_mode coupling" |
---|
[102] | 3530 | printf "\n\n" |
---|
[164] | 3531 | |
---|
[206] | 3532 | if [[ $coupled_mode = "mpi2" ]] |
---|
[164] | 3533 | then |
---|
[206] | 3534 | echo "atmosphere_to_ocean $iia $iio" > runfile_atmos |
---|
| 3535 | echo "ocean_to_atmosphere $iia $iio" > runfile_ocean |
---|
[197] | 3536 | |
---|
[1289] | 3537 | if [[ $host = lccrayf || $host = lcxe6 || $host = lcxt5m ]] |
---|
[206] | 3538 | then |
---|
[197] | 3539 | |
---|
[206] | 3540 | aprun -n $iia -N $tasks_per_node a.out < runfile_atmos $ROPTS & |
---|
| 3541 | aprun -n $iio -N $tasks_per_node a.out < runfile_ocean $ROPTS & |
---|
| 3542 | |
---|
| 3543 | else |
---|
| 3544 | # WORKAROUND BECAUSE mpiexec WITH -env option IS NOT AVAILABLE ON SOME SYSTEMS |
---|
| 3545 | mpiexec -machinefile hostfile -n $iia a.out $ROPTS < runfile_atmos & |
---|
| 3546 | mpiexec -machinefile hostfile -n $iio a.out $ROPTS < runfile_ocean & |
---|
| 3547 | # mpiexec -machinefile hostfile -n $iia -env coupling_mode atmosphere_to_ocean a.out $ROPTS & |
---|
| 3548 | # mpiexec -machinefile hostfile -n $iio -env coupling_mode ocean_to_atmosphere a.out $ROPTS & |
---|
| 3549 | fi |
---|
| 3550 | wait |
---|
| 3551 | |
---|
[164] | 3552 | else |
---|
| 3553 | |
---|
[206] | 3554 | echo "coupled_run $iia $iio" > runfile_atmos |
---|
| 3555 | |
---|
[1289] | 3556 | if [[ $host = lccrayf || $host = lcxe6 || $host = lcxt5m ]] |
---|
[206] | 3557 | then |
---|
| 3558 | |
---|
| 3559 | aprun -n $ii -N $tasks_per_node a.out < runfile_atmos $ROPTS |
---|
| 3560 | |
---|
[718] | 3561 | elif [[ $host = lck || $host = lckordi ]] |
---|
[367] | 3562 | then |
---|
[1108] | 3563 | |
---|
| 3564 | mpiexec -n $ii ./a.out $ROPTS < runfile_atmos & |
---|
| 3565 | |
---|
| 3566 | elif [[ $host = lckyu* ]] |
---|
| 3567 | then |
---|
| 3568 | |
---|
| 3569 | mpiexec -n $ii --stdin runfile_atmos ./a.out $ROPTS |
---|
| 3570 | |
---|
[206] | 3571 | fi |
---|
| 3572 | wait |
---|
[164] | 3573 | fi |
---|
[102] | 3574 | |
---|
[206] | 3575 | fi |
---|
[1289] | 3576 | |
---|
[440] | 3577 | elif [[ $host = lckyoto ]] |
---|
| 3578 | then |
---|
| 3579 | set -xv |
---|
| 3580 | export P4_RSHCOMMAND=plesh |
---|
| 3581 | echo " P4_RSHCOMMAND = $P4_RSHCOMMAND" |
---|
| 3582 | if [[ "$ENVIRONMENT" = BATCH ]] |
---|
| 3583 | then |
---|
[505] | 3584 | if [[ "$cond2" = fujitsu ]] |
---|
| 3585 | then |
---|
| 3586 | mpiexec -n $numprocs ./a.out $ROPTS # for fujitsu-compiler |
---|
| 3587 | elif [[ "cond2" = pgi ]] |
---|
| 3588 | then |
---|
| 3589 | mpirun -np $numprocs -machinefile ${QSUB_NODEINF} ./a.out $ROPTS |
---|
| 3590 | else |
---|
| 3591 | mpirun_rsh -np $numprocs -hostfile ${QSUB_NODEINF} MV2_USE_SRQ=0 ./a.out ${ROPTS} || /bin/true |
---|
| 3592 | fi |
---|
[440] | 3593 | else |
---|
[505] | 3594 | if [[ "$cond2" = "" ]] |
---|
| 3595 | then |
---|
| 3596 | mpiruni_rsh -np $numprocs ./a.out $ROPTS # for intel |
---|
| 3597 | else |
---|
| 3598 | mpirun -np $numprocs ./a.out $ROPTS |
---|
| 3599 | fi |
---|
[440] | 3600 | fi |
---|
| 3601 | set +xv |
---|
[1289] | 3602 | |
---|
[1] | 3603 | elif [[ $host = lctit ]] |
---|
| 3604 | then |
---|
[678] | 3605 | export OMP_NUM_THREADS=$threads_per_task |
---|
| 3606 | echo "OMP_NUM_THREADS=$OMP_NUM_THREADS" |
---|
| 3607 | if [[ "$threads_per_task" != 1 ]] |
---|
| 3608 | then |
---|
| 3609 | export MV2_ENABLE_AFFINITY=0 |
---|
| 3610 | fi |
---|
| 3611 | echo "----- PBS_NODEFILE content:" |
---|
| 3612 | cat $PBS_NODEFILE |
---|
| 3613 | echo "-----" |
---|
| 3614 | (( ii = $numprocs / $threads_per_task )) |
---|
| 3615 | echo "mpirun -np $ii -hostfile $PBS_NODEFILE ./a.out $ROPTS" |
---|
| 3616 | mpirun -np $ii -hostfile $PBS_NODEFILE ./a.out $ROPTS |
---|
[1] | 3617 | else |
---|
[102] | 3618 | mpprun -n $numprocs a.out $ROPTS |
---|
[1] | 3619 | fi |
---|
| 3620 | else |
---|
[102] | 3621 | a.out $ROPTS |
---|
[1] | 3622 | fi |
---|
| 3623 | fi |
---|
[1289] | 3624 | |
---|
| 3625 | if [[ $? != 0 ]] |
---|
[1] | 3626 | then |
---|
| 3627 | |
---|
[1289] | 3628 | # ABORT IN CASE OF RUNTIME ERRORS |
---|
[1] | 3629 | printf "\n +++ runtime error occured" |
---|
| 3630 | locat=execution |
---|
| 3631 | exit |
---|
[1289] | 3632 | |
---|
[1] | 3633 | else |
---|
[260] | 3634 | |
---|
[1289] | 3635 | printf "\n$dashes\n *** execution finished \n" |
---|
| 3636 | |
---|
| 3637 | # STOP THE DVR STREAMING SERVER AND PROCESS THE DVR OUTPUT IN ORDER |
---|
| 3638 | # TO CREAT DVRS- AND HTML-FILES CONTAINING ALL STREAMS |
---|
[260] | 3639 | if [[ "$dvrserver_id" != "" ]] |
---|
| 3640 | then |
---|
| 3641 | kill $dvrserver_id |
---|
| 3642 | printf "\n *** dvr server with id=$dvrserver_id has been stopped" |
---|
[261] | 3643 | |
---|
[1289] | 3644 | # IF THERE IS A DIRECTORY, DATA HAVE BEEN OUTPUT BY THE |
---|
| 3645 | # STREAMING SERVER. OTHERWISE, USER HAS CHOSEN dvrp_output=local |
---|
[262] | 3646 | if [[ -d DATA_DVR ]] |
---|
| 3647 | then |
---|
[261] | 3648 | |
---|
[1289] | 3649 | # ADD THE CURRENT DVR CONFIGURATION FILE TO THE DVR OUTPUT |
---|
| 3650 | # DIRECTORY |
---|
[262] | 3651 | cp .dvrserver.config DATA_DVR |
---|
| 3652 | |
---|
[1289] | 3653 | # PROCESS THE DVR OUTPUT (OPTION -s FOR GENERATING |
---|
| 3654 | # SEQUENCE MODE DATA TOO) |
---|
[262] | 3655 | process_dvr_output -d DATA_DVR -f $fname -s |
---|
| 3656 | |
---|
| 3657 | else |
---|
| 3658 | |
---|
[1289] | 3659 | # PROCESS THE LOCAL OUTPUT |
---|
[262] | 3660 | process_dvr_output -l -d DATA_DVR -f $fname |
---|
| 3661 | |
---|
| 3662 | fi |
---|
| 3663 | |
---|
| 3664 | elif [[ $(echo $package_list | grep -c dvrp_graphics) != 0 ]] |
---|
| 3665 | then |
---|
| 3666 | |
---|
[1289] | 3667 | # PROCESS DVR OUTPUT GENERATD IN LOCAL MODE (dvrp_output=local) |
---|
[262] | 3668 | process_dvr_output -l -d DATA_DVR -f $fname |
---|
| 3669 | |
---|
[260] | 3670 | fi |
---|
[1] | 3671 | fi |
---|
| 3672 | |
---|
| 3673 | |
---|
| 3674 | |
---|
[1289] | 3675 | # CALL OF combine_plot_fields IN ORDER TO MERGE SINGLE FILES WRITTEN |
---|
| 3676 | # BY EACH CORE INTO ONE FILE |
---|
[920] | 3677 | if [[ ! -f ${PALM_BIN}/combine_plot_fields${block}.x ]] |
---|
| 3678 | then |
---|
| 3679 | printf "\n\n\n +++ WARNING: no combine_plot_fields found for given block \"$cond1 $cond2\"" |
---|
| 3680 | printf "\n 2d- and/or 3d-data may be incomplete!" |
---|
| 3681 | printf "\n Run \"mbuild -u -h $localhost\" to generate utilities for this block.\n" |
---|
| 3682 | elif [[ "$combine_plot_fields" == true ]] |
---|
| 3683 | then |
---|
[1270] | 3684 | if [[ $localhost = lccrayh || $localhost = lccrayb ]] |
---|
| 3685 | then |
---|
| 3686 | printf "\n\n\n *** post-processing: now executing \"aprun -n 1 -N 1 combine_plot_fields${block}.x\" ..." |
---|
| 3687 | aprun -n 1 -N 1 combine_plot_fields${block}.x #$ROPTS < runfile_atmos |
---|
| 3688 | else |
---|
| 3689 | printf "\n\n\n *** post-processing: now executing \"combine_plot_fields${block}.x\" ..." |
---|
| 3690 | combine_plot_fields${block}.x |
---|
| 3691 | fi |
---|
[920] | 3692 | else |
---|
[1289] | 3693 | |
---|
| 3694 | # TEMPORARY SOLUTION TO SKIP combine_plot_fields. THIS IS REQUIRED IN CASE OF HUGE AMOUNT OF |
---|
| 3695 | # DATA OUTPUT. TO DO: EXTEND THIS BRANCH BY CREATING A BATCH JOB for combine_plot_fields. |
---|
| 3696 | # ??? koennen wir das streichen ??? |
---|
[920] | 3697 | printf "\n\n\n *** post-processing: skipping combine_plot_fields (-Z option set) ..." |
---|
| 3698 | fi |
---|
[503] | 3699 | |
---|
| 3700 | |
---|
| 3701 | |
---|
[1289] | 3702 | # EXECUTE OUTPUT-COMMANDS GIVEN IN THE CONFIGURATION FILE |
---|
[1] | 3703 | (( i = 0 )) |
---|
| 3704 | while (( i < ioc )) |
---|
| 3705 | do |
---|
| 3706 | (( i = i + 1 )) |
---|
| 3707 | if (( i == 1 )) |
---|
| 3708 | then |
---|
[1289] | 3709 | printf "\n\n *** execution of OUTPUT-commands:\n$dashes" |
---|
[1] | 3710 | fi |
---|
| 3711 | printf "\n >>> ${out_command[$i]}" |
---|
| 3712 | eval ${out_command[$i]} |
---|
| 3713 | if (( i == ioc )) |
---|
| 3714 | then |
---|
[1289] | 3715 | printf "\n$dashes\n" |
---|
[1] | 3716 | fi |
---|
| 3717 | done |
---|
| 3718 | |
---|
| 3719 | |
---|
[1289] | 3720 | # IN TRACE-MODE PRINT CONTENTS OF THE CURRENT (TEMPORARY) WORKING DIRECTORY |
---|
[1] | 3721 | if [[ $do_trace = true ]] |
---|
| 3722 | then |
---|
| 3723 | printf "\n\n" |
---|
| 3724 | ls -al |
---|
| 3725 | fi |
---|
| 3726 | |
---|
| 3727 | |
---|
| 3728 | |
---|
[1289] | 3729 | # COPY LOCAL OUTPUT-FILES TO THEIR PERMANENT DESTINATIONS |
---|
[1] | 3730 | (( i = 0 )) |
---|
| 3731 | while (( i < iout )) |
---|
| 3732 | do |
---|
| 3733 | (( i = i + 1 )) |
---|
| 3734 | if (( i == 1 )) |
---|
| 3735 | then |
---|
[1289] | 3736 | printf "\n\n *** saving OUTPUT-files:\n$dashes" |
---|
[1] | 3737 | fi |
---|
| 3738 | |
---|
[1289] | 3739 | # CHECK FOR SINGLE FILE (SERIAL RUN) OR DIRECTORY (ONE FILE PER CORE FOR PARELLEL EXECUTION) |
---|
[1] | 3740 | files_for_pes=false; filetyp=file |
---|
| 3741 | if [[ "${actionout[$i]}" = pe && -n $numprocs ]] |
---|
| 3742 | then |
---|
| 3743 | files_for_pes=true; filetyp=directory |
---|
| 3744 | actionout[$i]="" |
---|
| 3745 | elif [[ "${actionout[$i]}" = pe && ! -n $numprocs ]] |
---|
| 3746 | then |
---|
| 3747 | actionout[$i]="" |
---|
| 3748 | elif [[ "${actionout[$i]}" = arpe && -n $numprocs ]] |
---|
| 3749 | then |
---|
| 3750 | files_for_pes=true; filetyp=directory |
---|
| 3751 | actionout[$i]="ar" |
---|
| 3752 | elif [[ "${actionout[$i]}" = arpe && ! -n $numprocs ]] |
---|
| 3753 | then |
---|
| 3754 | actionout[$i]="ar" |
---|
| 3755 | elif [[ "${actionout[$i]}" = flpe && -n $numprocs ]] |
---|
| 3756 | then |
---|
| 3757 | files_for_pes=true; filetyp=directory |
---|
| 3758 | actionout[$i]="fl" |
---|
| 3759 | elif [[ "${actionout[$i]}" = flpe && ! -n $numprocs ]] |
---|
| 3760 | then |
---|
| 3761 | actionout[$i]="fl" |
---|
| 3762 | elif [[ "${actionout[$i]}" = trpe && -n $numprocs ]] |
---|
| 3763 | then |
---|
| 3764 | files_for_pes=true; filetyp=directory |
---|
| 3765 | actionout[$i]="tr" |
---|
| 3766 | elif [[ "${actionout[$i]}" = trpe && ! -n $numprocs ]] |
---|
| 3767 | then |
---|
| 3768 | actionout[$i]="tr" |
---|
| 3769 | fi |
---|
| 3770 | |
---|
| 3771 | if [[ ! -f ${localout[$i]} && $files_for_pes = false ]] |
---|
| 3772 | then |
---|
| 3773 | printf "\n +++ temporary OUTPUT-file ${localout[$i]} does not exist\n" |
---|
[260] | 3774 | elif [[ ! -d ${localout[$i]} && $files_for_pes = true ]] |
---|
[1] | 3775 | then |
---|
| 3776 | printf "\n +++ temporary OUTPUT-file ${localout[$i]}/.... does not exist\n" |
---|
| 3777 | else |
---|
| 3778 | |
---|
| 3779 | |
---|
[1289] | 3780 | # COPY VIA SCP TO LOCAL HOST (ALWAYS IN BINARY MODE USING batch_scp option -m) |
---|
| 3781 | # IF TARGET DIRECTORY DOES NOT EXISTS, TRY TO CREATE IT |
---|
[1] | 3782 | if [[ "${actionout[$i]}" = tr ]] |
---|
| 3783 | then |
---|
| 3784 | if [[ $localhost != $fromhost ]] |
---|
| 3785 | then |
---|
| 3786 | if [[ $files_for_pes = false ]] |
---|
| 3787 | then |
---|
| 3788 | cps="" |
---|
| 3789 | cst="" |
---|
| 3790 | else |
---|
| 3791 | cps=-c |
---|
| 3792 | cst="/" |
---|
| 3793 | fi |
---|
[622] | 3794 | if [[ $localhost = nech ]] |
---|
[1] | 3795 | then |
---|
| 3796 | |
---|
[1289] | 3797 | # TRANSFER IN SEPERATE JOB |
---|
| 3798 | # FIRST COPY FILE TO TEMPORY DATA DIRECTORY |
---|
[1] | 3799 | [[ ! -d $tmp_data_catalog/TRANSFER ]] && mkdir -p $tmp_data_catalog/TRANSFER |
---|
| 3800 | file_to_transfer=${fname}_${localout[$i]}_to_transfer_$kennung |
---|
| 3801 | if [[ $files_for_pes = false ]] |
---|
| 3802 | then |
---|
| 3803 | ln -f ${localout[$i]} $tmp_data_catalog/TRANSFER/$file_to_transfer |
---|
| 3804 | else |
---|
| 3805 | mkdir $tmp_data_catalog/TRANSFER/$file_to_transfer |
---|
| 3806 | ln ${localout[$i]}/* $tmp_data_catalog/TRANSFER/$file_to_transfer |
---|
| 3807 | fi |
---|
| 3808 | |
---|
| 3809 | echo "set -x" > transfer_${localout[$i]} |
---|
| 3810 | echo "cd $tmp_data_catalog/TRANSFER" >> transfer_${localout[$i]} |
---|
[82] | 3811 | |
---|
| 3812 | printf "\n >>> OUTPUT: ${localout[$i]}$cst by SCP in seperate job to" |
---|
| 3813 | printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}$cst" |
---|
| 3814 | printf "\n or higher cycle\n" |
---|
[1468] | 3815 | echo "batch_scp $PORTOPT $cps -b -m -u $return_username $return_address $file_to_transfer \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}" >> transfer_${localout[$i]} |
---|
[82] | 3816 | |
---|
[1] | 3817 | echo "[[ \$? = 0 ]] && rm $file_to_transfer" >> transfer_${localout[$i]} |
---|
| 3818 | |
---|
| 3819 | if [[ $localhost = nech ]] |
---|
| 3820 | then |
---|
[1094] | 3821 | subjob -d -c /pf/b/$usern/job_queue -v -q pp -X 0 -m 1000 -t 900 $PORTOPT transfer_${localout[$i]} |
---|
[1] | 3822 | else |
---|
| 3823 | if [[ "$LOGNAME" = b323013 ]] |
---|
| 3824 | then |
---|
[1094] | 3825 | subjob -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]} |
---|
[1] | 3826 | else |
---|
[1094] | 3827 | subjob -d -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]} |
---|
[1] | 3828 | fi |
---|
| 3829 | fi |
---|
| 3830 | |
---|
| 3831 | else |
---|
| 3832 | |
---|
[1289] | 3833 | # TRANSFER WITHIN THIS JOB |
---|
[1] | 3834 | transfer_failed=false |
---|
[82] | 3835 | printf "\n >>> OUTPUT: ${localout[$i]}$cst by SCP to" |
---|
| 3836 | printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}$cst\n" |
---|
[1255] | 3837 | if [[ $localhost = lccrayb ]] |
---|
| 3838 | then |
---|
[1468] | 3839 | ssh $usern@blogin1 ". \\$HOME/.profile; cd $TEMPDIR; batch_scp $PORTOPT $cps -b -m -u $return_username $return_address ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}" |
---|
[1274] | 3840 | elif [[ $localhost = lccrayh ]] |
---|
| 3841 | then |
---|
[1468] | 3842 | ssh $usern@hlogin1 ". \\$HOME/.profile; cd $TEMPDIR; batch_scp $PORTOPT $cps -b -m -u $return_username $return_address ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}" |
---|
| 3843 | elif [[ $localhost = lcxe6 ]] |
---|
| 3844 | then |
---|
| 3845 | ssh $usern@hexagon ". \\$HOME/.profile; cd $TEMPDIR; batch_scp $PORTOPT $cps -b -m -u $return_username $return_address ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}" |
---|
[1255] | 3846 | else |
---|
[1468] | 3847 | batch_scp $PORTOPT $cps -b -m -u $return_username $return_address ${localout[$i]} "${pathout[$i]}" ${localhost}_${fname}${endout[$i]} ${extout[$i]} |
---|
[1255] | 3848 | fi |
---|
[82] | 3849 | [[ $? != 0 ]] && transfer_failed=true |
---|
[1] | 3850 | |
---|
[1289] | 3851 | # IF TRANSFER FAILED, CREATE BACKUP COPY ON THIS MACHINE |
---|
[1] | 3852 | if [[ $transfer_failed = true ]] |
---|
| 3853 | then |
---|
[1289] | 3854 | printf " +++ transfer failed. Trying to save a copy on this host under:\n" |
---|
[1] | 3855 | printf " ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung\n" |
---|
| 3856 | |
---|
[1289] | 3857 | # FIRST CHECK, IF DIRECTORY EXISTS, AND CREATE IT, IF NECESSARY |
---|
[1] | 3858 | eval local_catalog=${pathout[$i]} |
---|
| 3859 | if [[ ! -d $local_catalog ]] |
---|
| 3860 | then |
---|
| 3861 | printf " *** local directory does not exist. Trying to create:\n" |
---|
| 3862 | printf " $local_catalog \n" |
---|
| 3863 | mkdir -p $local_catalog |
---|
| 3864 | fi |
---|
| 3865 | eval cp ${localout[$i]} ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung |
---|
| 3866 | transfer_problems=true |
---|
| 3867 | fi |
---|
| 3868 | fi |
---|
| 3869 | else |
---|
| 3870 | |
---|
[1289] | 3871 | # UNSET actionout. DUE TO THIS SETTING, FILE WILL LATER JUST BE COPIED ON THIS MACHINE |
---|
[1] | 3872 | actionout[$i]="" |
---|
| 3873 | fi |
---|
| 3874 | fi |
---|
| 3875 | |
---|
| 3876 | |
---|
[1289] | 3877 | # APPEND VIA SCP TO LOCAL HOST (ALWAYS IN BINARY MODE USING batch_scp option -m) |
---|
| 3878 | # IF TARGET DIRECTORY DOES NOT EXISTS, TRY TO CREATE IT |
---|
[1] | 3879 | if [[ "${actionout[$i]}" = tra ]] |
---|
| 3880 | then |
---|
| 3881 | if [[ $localhost != $fromhost ]] |
---|
| 3882 | then |
---|
[622] | 3883 | if [[ $localhost = ibmh || $localhost = nech ]] |
---|
[1] | 3884 | then |
---|
| 3885 | |
---|
[1289] | 3886 | # TRANSFER IN SEPERATE JOB |
---|
| 3887 | # FIRST COPY FILE TO TEMPORY DATA DIRECTORY |
---|
[1] | 3888 | [[ ! -d $tmp_data_catalog/TRANSFER ]] && mkdir -p $tmp_data_catalog/TRANSFER |
---|
| 3889 | file_to_transfer=${fname}_${localout[$i]}_to_transfer_$kennung |
---|
| 3890 | ln -f ${localout[$i]} $tmp_data_catalog/TRANSFER/$file_to_transfer |
---|
| 3891 | |
---|
| 3892 | echo "set -x" > transfer_${localout[$i]} |
---|
| 3893 | echo "cd $tmp_data_catalog/TRANSFER" >> transfer_${localout[$i]} |
---|
[82] | 3894 | |
---|
| 3895 | printf "\n >>> OUTPUT: ${localout[$i]} append by SCP in seperate job to" |
---|
| 3896 | printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}" |
---|
| 3897 | printf "\n or higher cycle\n" |
---|
[1468] | 3898 | echo "batch_scp $PORTOPT -A -b -m -u $return_username $return_address $file_to_transfer \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}" >> transfer_${localout[$i]} |
---|
[82] | 3899 | |
---|
[1] | 3900 | echo "[[ \$? = 0 ]] && rm $file_to_transfer" >> transfer_${localout[$i]} |
---|
| 3901 | |
---|
| 3902 | if [[ $localhost = nech ]] |
---|
| 3903 | then |
---|
[1094] | 3904 | subjob -d -c /pf/b/$usern/job_queue -v -q pp -X 0 -m 1000 -t 900 $PORTOPT transfer_${localout[$i]} |
---|
[1] | 3905 | else |
---|
| 3906 | if [[ $LOGNAME = b323013 ]] |
---|
| 3907 | then |
---|
[1094] | 3908 | subjob -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]} |
---|
[1] | 3909 | else |
---|
[1094] | 3910 | subjob -d -v -q c1 -X 0 -m 1000 -t 900 -c $job_catalog $PORTOPT transfer_${localout[$i]} |
---|
[1] | 3911 | fi |
---|
| 3912 | fi |
---|
| 3913 | |
---|
| 3914 | else |
---|
| 3915 | |
---|
[1289] | 3916 | # TRANSFER WITHIN THIS JOB |
---|
[1] | 3917 | transfer_failed=false |
---|
[82] | 3918 | printf "\n >>> OUTPUT: ${localout[$i]} append by SCP to" |
---|
| 3919 | printf "\n ${pathout[$i]}/${localhost}_${fname}${endout[$i]}\n" |
---|
[1255] | 3920 | if [[ $localhost = lccrayb ]] |
---|
| 3921 | then |
---|
[1468] | 3922 | ssh $usern@blogin1 ". \\$HOME/.profile; cd $TEMPDIR; batch_scp $PORTOPT -A -b -m -u $return_username $return_address ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}" |
---|
[1274] | 3923 | elif [[ $localhost = lccrayh ]] |
---|
| 3924 | then |
---|
[1468] | 3925 | ssh $usern@hlogin1 ". \\$HOME/.profile; cd $TEMPDIR; batch_scp $PORTOPT -A -b -m -u $return_username $return_address ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}" |
---|
| 3926 | elif [[ $localhost = lcxe6 ]] |
---|
| 3927 | then |
---|
| 3928 | ssh $usern@hexagon ". \\$HOME/.profile; cd $TEMPDIR; batch_scp $PORTOPT -A -b -m -u $return_username $return_address ${localout[$i]} \"${pathout[$i]}\" ${localhost}_${fname}${endout[$i]} ${extout[$i]}" |
---|
[1255] | 3929 | else |
---|
[1468] | 3930 | batch_scp $PORTOPT -A -b -m -u $return_username $return_address ${localout[$i]} "${pathout[$i]}" ${localhost}_${fname}${endout[$i]} ${extout[$i]} |
---|
[1255] | 3931 | fi |
---|
[82] | 3932 | [[ $? != 0 ]] && transfer_failed=true |
---|
[1] | 3933 | |
---|
[1289] | 3934 | # IF TRANSFER FAILED, CREATE BACKUP COPY ON THIS MACHINE |
---|
[1] | 3935 | if [[ $transfer_failed = true ]] |
---|
| 3936 | then |
---|
[1289] | 3937 | printf " +++ transfer failed. Trying to save a copy on this host under:\n" |
---|
[1] | 3938 | printf " ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung\n" |
---|
| 3939 | |
---|
[1289] | 3940 | # FIRST CHECK, IF DIRECTORY EXISTS, AND CREATE IT, IF NECESSARY |
---|
[1] | 3941 | eval local_catalog=${pathout[$i]} |
---|
| 3942 | if [[ ! -d $local_catalog ]] |
---|
| 3943 | then |
---|
| 3944 | printf " *** local directory does not exist. Trying to create:\n" |
---|
| 3945 | printf " $local_catalog \n" |
---|
| 3946 | mkdir -p $local_catalog |
---|
| 3947 | fi |
---|
| 3948 | |
---|
| 3949 | eval cp ${localout[$i]} ${pathout[$i]}/${localhost}_${fname}${endout[$i]}_$kennung |
---|
| 3950 | transfer_problems=true |
---|
| 3951 | fi |
---|
| 3952 | fi |
---|
| 3953 | else |
---|
| 3954 | |
---|
[1289] | 3955 | # RESET actionout. DUE TO THIS SETTING, FILE WILL LATER JUST BE APPENDED ON THIS MACHINE |
---|
[1] | 3956 | actionout[$i]=a |
---|
| 3957 | fi |
---|
| 3958 | fi |
---|
| 3959 | |
---|
| 3960 | |
---|
[1289] | 3961 | # OUTPUT-FILE FOR A RESTART-RUN. |
---|
| 3962 | # FILE IS MOVED TO THE TEMPORARY DATA DIRECTORY USING link COMMAND. |
---|
| 3963 | # OPTION -f IS USED TO OVERWRITE EXISTING FILES. |
---|
| 3964 | # AS LAST ACTION, ARCHIVING IS INITIATED. |
---|
[1] | 3965 | if [[ "${actionout[$i]}" = fl ]] |
---|
| 3966 | then |
---|
| 3967 | [[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog |
---|
| 3968 | chmod g+rx $tmp_data_catalog |
---|
| 3969 | if [[ $files_for_pes = false ]] |
---|
| 3970 | then |
---|
| 3971 | printf "\n >>> OUTPUT: ${localout[$i]} to" |
---|
| 3972 | printf "\n $tmp_data_catalog/${frelout[$i]} (temporary data catalog)\n" |
---|
| 3973 | ln -f ${localout[$i]} $tmp_data_catalog/${frelout[$i]} |
---|
| 3974 | else |
---|
| 3975 | printf "\n >>> OUTPUT: ${localout[$i]}/.... to" |
---|
| 3976 | printf "\n $tmp_data_catalog/${frelout[$i]} (temporary data catalog)\n" |
---|
| 3977 | mkdir $tmp_data_catalog/${frelout[$i]} |
---|
[149] | 3978 | cd ${localout[$i]} |
---|
| 3979 | for file in $(ls *) |
---|
| 3980 | do |
---|
| 3981 | ln -f $file $tmp_data_catalog/${frelout[$i]} |
---|
| 3982 | done |
---|
| 3983 | cd $TEMPDIR |
---|
[1] | 3984 | fi |
---|
| 3985 | |
---|
| 3986 | |
---|
[1289] | 3987 | # CREATE AND SUBMIT ARCHIVING-JOB |
---|
[1] | 3988 | if [[ $store_on_archive_system = true ]] |
---|
| 3989 | then |
---|
| 3990 | |
---|
| 3991 | if [[ $archive_system = asterix ]] |
---|
| 3992 | then |
---|
| 3993 | echo "cd $tmp_data_catalog" >> archive_${frelout[$i]} |
---|
| 3994 | if [[ $files_for_pes = false ]] |
---|
| 3995 | then |
---|
| 3996 | echo "stageout ${frelout[$i]} > STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]} |
---|
| 3997 | else |
---|
| 3998 | echo "stageout -t ${frelout[$i]} > STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]} |
---|
| 3999 | fi |
---|
| 4000 | echo "cat STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]} |
---|
| 4001 | echo "if [[ \$(grep -c \"st.msg:150\" STAGE_OUTPUT${i}_$kennung) != 0 ]]" >> archive_${frelout[$i]} |
---|
| 4002 | echo "then" >> archive_${frelout[$i]} |
---|
| 4003 | echo " do_stageout=false" >> archive_${frelout[$i]} |
---|
| 4004 | echo "else" >> archive_${frelout[$i]} |
---|
| 4005 | echo " echo \" +++ $filetyp ${frelout[$i]} could not be stored on archive-system\" " >> archive_${frelout[$i]} |
---|
| 4006 | echo " cat /dev/null > ~/job_queue/ARCHIVE_ERROR_$fname" >> archive_${frelout[$i]} |
---|
| 4007 | echo " cat STAGE_OUTPUT${i}_$kennung > ~/job_queue/archive_${frelout[$i]}_error" >> archive_${frelout[$i]} |
---|
| 4008 | echo " echo \" *** $filetyp ${frelout[$i]} will be copied to \$WORK as backup\" " >> archive_${frelout[$i]} |
---|
| 4009 | if [[ $files_for_pes = false ]] |
---|
| 4010 | then |
---|
| 4011 | echo " cp ${frelout[$i]} \$WORK" >> archive_${frelout[$i]} |
---|
| 4012 | else |
---|
| 4013 | echo " cp -r ${frelout[$i]} \$WORK/${frelout[$i]}" >> archive_${frelout[$i]} |
---|
| 4014 | fi |
---|
| 4015 | echo " echo \" *** $filetyp ${frelout[$i]} saved\" " >> archive_${frelout[$i]} |
---|
| 4016 | echo "fi" >> archive_${frelout[$i]} |
---|
| 4017 | echo "rm STAGE_OUTPUT${i}_$kennung" >> archive_${frelout[$i]} |
---|
| 4018 | elif [[ $archive_system = DMF ]] |
---|
| 4019 | then |
---|
| 4020 | echo "cd $tmp_data_catalog" >> archive_${frelout[$i]} |
---|
| 4021 | if [[ $files_for_pes = false ]] |
---|
| 4022 | then |
---|
| 4023 | printf "\n +++ archiving of single files impossible with $archive_system !\n" |
---|
| 4024 | locat=DMF |
---|
| 4025 | exit |
---|
| 4026 | else |
---|
[1289] | 4027 | # ??? nicht benötigte Archiv-Systeme entfernen ??? |
---|
[1] | 4028 | # FUER RECHNER IN JUELICH. DORT KOENNTEN AUCH |
---|
| 4029 | # EINZELNE DATEIEN GESICHERT WERDEN (SPAETER KORR.) |
---|
| 4030 | echo "rm -rf \$ARCHIVE/${frelout[$i]}" >> archive_${frelout[$i]} |
---|
| 4031 | echo "cp -r ${frelout[$i]} \$ARCHIVE" >> archive_${frelout[$i]} |
---|
| 4032 | fi |
---|
| 4033 | elif [[ $archive_system = tivoli ]] |
---|
| 4034 | then |
---|
| 4035 | echo "cd $tmp_data_catalog" >> archive_${frelout[$i]} |
---|
| 4036 | if [[ $files_for_pes = false ]] |
---|
| 4037 | then |
---|
[1289] | 4038 | # REMOVE EXISTING OLD FILES FROM THE ARCHIVE |
---|
[1] | 4039 | echo "set -x" >> archive_${frelout[$i]} |
---|
| 4040 | echo "rm -rf \$PERM/${frelout[$i]}" >> archive_${frelout[$i]} |
---|
| 4041 | echo "cp ${frelout[$i]} \$PERM/${frelout[$i]}" >> archive_${frelout[$i]} |
---|
| 4042 | else |
---|
| 4043 | |
---|
| 4044 | echo "set -x" >> archive_${frelout[$i]} |
---|
| 4045 | echo "rm -rf \$PERM/${frelout[$i]}/*" >> archive_${frelout[$i]} |
---|
| 4046 | echo "[[ ! -d \$PERM/${frelout[$i]} ]] && mkdir $PERM/${frelout[$i]}" >> archive_${frelout[$i]} |
---|
| 4047 | cd $tmp_data_catalog |
---|
| 4048 | all_files=`ls -1 ${frelout[$i]}/*` |
---|
| 4049 | cd - > /dev/null |
---|
| 4050 | (( inode = 0 )) |
---|
| 4051 | (( tp1 = tasks_per_node + 1 )) |
---|
| 4052 | while (( inode < nodes )) |
---|
| 4053 | do |
---|
| 4054 | files=`echo $all_files | cut -d" " -f1-$tasks_per_node` |
---|
| 4055 | all_files=`echo $all_files | cut -d" " -f$tp1-` |
---|
[1289] | 4056 | echo "tar cvf \$PERM/${frelout[$i]}/${frelout[$i]}.node_$inode.tar $files" >> archive_${frelout[$i]} |
---|
[1] | 4057 | (( inode = inode + 1 )) |
---|
| 4058 | done |
---|
| 4059 | fi |
---|
| 4060 | elif [[ $archive_system = ut ]] |
---|
| 4061 | then |
---|
| 4062 | echo "cd $tmp_data_catalog" >> archive_${frelout[$i]} |
---|
| 4063 | if [[ $files_for_pes = false ]] |
---|
| 4064 | then |
---|
[1289] | 4065 | # REMOVE EXISTING OLD FILES FROM THE ARCHIVE |
---|
[1] | 4066 | echo "set -x" >> archive_${frelout[$i]} |
---|
| 4067 | echo "rm -rf \$UT/${frelout[$i]}" >> archive_${frelout[$i]} |
---|
| 4068 | echo "cp ${frelout[$i]} \$UT/${frelout[$i]}" >> archive_${frelout[$i]} |
---|
| 4069 | else |
---|
| 4070 | |
---|
| 4071 | echo "set -x" >> archive_${frelout[$i]} |
---|
| 4072 | echo "rm -rf \$UT/${frelout[$i]}/*" >> archive_${frelout[$i]} |
---|
| 4073 | echo "[[ ! -d \$UT/${frelout[$i]} ]] && mkdir $UT/${frelout[$i]}" >> archive_${frelout[$i]} |
---|
| 4074 | cd $tmp_data_catalog |
---|
| 4075 | all_files=`ls -1 ${frelout[$i]}/*` |
---|
| 4076 | cd - > /dev/null |
---|
| 4077 | (( inode = 0 )) |
---|
| 4078 | (( tp1 = tasks_per_node + 1 )) |
---|
| 4079 | while (( inode < nodes )) |
---|
| 4080 | do |
---|
| 4081 | files=`echo $all_files | cut -d" " -f1-$tasks_per_node` |
---|
| 4082 | all_files=`echo $all_files | cut -d" " -f$tp1-` |
---|
| 4083 | echo "tar cvf \$UT/${frelout[$i]}/${frelout[$i]}.node_$inode.tar $files" >> archive_${frelout[$i]} |
---|
| 4084 | (( inode = inode + 1 )) |
---|
| 4085 | done |
---|
| 4086 | fi |
---|
| 4087 | elif [[ $archive_system = none ]] |
---|
| 4088 | then |
---|
| 4089 | printf " +++ archiving on $localhost not available!\n" |
---|
| 4090 | fi |
---|
| 4091 | |
---|
| 4092 | if [[ $archive_system != none ]] |
---|
| 4093 | then |
---|
[1289] | 4094 | if [[ $localhost = nech ]] |
---|
[1] | 4095 | then |
---|
[1094] | 4096 | subjob -d -c /pf/b/$usern/job_queue -v -q pp -X 0 -m 1000 -t 7200 $PORTOPT archive_${frelout[$i]} |
---|
[1] | 4097 | fi |
---|
| 4098 | printf " Archiving of $tmp_data_catalog/${frelout[$i]} initiated (batch job submitted)\n" |
---|
| 4099 | fi |
---|
| 4100 | else |
---|
[399] | 4101 | printf " +++ caution: option -A is switched off. No archiving on $archive_system!\n" |
---|
[1] | 4102 | fi |
---|
| 4103 | |
---|
| 4104 | |
---|
[1289] | 4105 | # CREATE AN EMPTY DIRECTORY IN THE USERS PERMANENT DIRECTORY, |
---|
| 4106 | # IN ORDER TO NOTE THE RESPECTIVE CYCLE NUMBER ON THE ARCHIVE SYSTEM |
---|
| 4107 | # RESTART-JOBS ARE USING THESE EMPTY-DIRECTORIES TO GET THE CURRENT HIGHEST |
---|
| 4108 | # CYCLE NUMBER ON THE ARCHIVE SYSTEM (IN CASE THAT INFORMATIONS ARE DIFFICULT TO |
---|
| 4109 | # TO ACCESS FROM THE ARCHIVE-SYSTEM DIRECTLY)) |
---|
[1] | 4110 | if [[ $files_for_pes = false ]] |
---|
| 4111 | then |
---|
| 4112 | cat /dev/null > ${pathout[$i]} |
---|
| 4113 | else |
---|
| 4114 | mkdir -p ${pathout[$i]} |
---|
| 4115 | fi |
---|
| 4116 | |
---|
| 4117 | fi |
---|
| 4118 | |
---|
| 4119 | |
---|
[1289] | 4120 | # COPY FROM THIS HOST TO THE ARCHIVE-SYSTEM |
---|
| 4121 | # IF ANY ARCHIVING FAILS, AN ERROR-FLAG-FILE IS SET |
---|
| 4122 | # THIS FILE REMAINS TO BE SET, EVEN IF ARCHIVING OF FURTHER FILES IS SUCCESSFULL |
---|
[1] | 4123 | if [[ "${actionout[$i]}" = ar ]] |
---|
| 4124 | then |
---|
| 4125 | if [[ $files_for_pes = false ]] |
---|
| 4126 | then |
---|
| 4127 | printf "\n >>> OUTPUT: ${localout[$i]} to" |
---|
| 4128 | printf "\n ${pathout[$i]}" |
---|
| 4129 | printf "\n File will be copied to archive-system ($archive_system) !\n" |
---|
| 4130 | else |
---|
| 4131 | printf "\n >>> OUTPUT: ${localout[$i]}/_.... to" |
---|
| 4132 | printf "\n ${pathout[$i]}" |
---|
| 4133 | printf "\n Directory will be copied to archive-system ($archive_system) !\n" |
---|
| 4134 | fi |
---|
| 4135 | mv ${localout[$i]} ${frelout[$i]} |
---|
| 4136 | |
---|
| 4137 | file_saved=false |
---|
| 4138 | |
---|
| 4139 | if [[ $archive_system = asterix ]] |
---|
| 4140 | then |
---|
| 4141 | do_stageout=true |
---|
| 4142 | (( stageout_anz = 0 )) |
---|
| 4143 | while [[ $do_stageout = true ]] |
---|
| 4144 | do |
---|
| 4145 | if [[ $files_for_pes = false ]] |
---|
| 4146 | then |
---|
| 4147 | stageout ${frelout[$i]} > STAGE_OUTPUT |
---|
| 4148 | else |
---|
| 4149 | stageout -t ${frelout[$i]} > STAGE_OUTPUT |
---|
| 4150 | fi |
---|
| 4151 | cat STAGE_OUTPUT |
---|
| 4152 | if [[ $(grep -c "st.msg:150" STAGE_OUTPUT) != 0 ]] |
---|
| 4153 | then |
---|
| 4154 | file_saved=true |
---|
| 4155 | do_stageout=false |
---|
| 4156 | else |
---|
| 4157 | if [[ $files_for_pes = false ]] |
---|
| 4158 | then |
---|
| 4159 | printf "\n +++ file ${frelout[$i]} could not be saved on archive-system" |
---|
| 4160 | else |
---|
| 4161 | printf "\n +++ directory ${frelout[$i]} could not be saved on archive-system" |
---|
| 4162 | fi |
---|
| 4163 | (( stageout_anz = stageout_anz + 1 )) |
---|
| 4164 | if (( stageout_anz == 10 )) |
---|
| 4165 | then |
---|
| 4166 | printf "\n +++ stoped after 10 unsuccessful tries!" |
---|
| 4167 | archive_save=false |
---|
| 4168 | do_stageout=false |
---|
| 4169 | else |
---|
| 4170 | printf "\n *** new try to store on archive after 15 min:" |
---|
| 4171 | sleep 900 |
---|
| 4172 | fi |
---|
| 4173 | fi |
---|
| 4174 | done |
---|
| 4175 | elif [[ $archive_system = DMF ]] |
---|
| 4176 | then |
---|
| 4177 | if [[ $files_for_pes = false ]] |
---|
| 4178 | then |
---|
| 4179 | printf "\n +++ archiving of single files impossible on $archive_system!\n" |
---|
| 4180 | locat=DMF |
---|
| 4181 | exit |
---|
| 4182 | else |
---|
| 4183 | rm -rf $ARCHIVE/${frelout[$i]} |
---|
| 4184 | cp -r ${frelout[$i]} $ARCHIVE |
---|
| 4185 | fi |
---|
| 4186 | file_saved=true |
---|
| 4187 | elif [[ $archive_system = tivoli ]] |
---|
| 4188 | then |
---|
[1289] | 4189 | # ARCHIVING ONLY POSSIBLE VIA BATCH-JOB |
---|
| 4190 | # IN THE MEANTIME, FILE IS STORED IN THE TEMPORARY DATA DIRECTORY, |
---|
| 4191 | # BECAUSE MRUN'S CURRENT TEMPORARY WORKING DIRECTORY MAY ALREADY BE DELETED |
---|
| 4192 | # WHEN THE ARCHIVE-JOB IS EXECUTED |
---|
[1] | 4193 | [[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog |
---|
| 4194 | chmod g+rx $tmp_data_catalog |
---|
| 4195 | if [[ $files_for_pes = false ]] |
---|
| 4196 | then |
---|
| 4197 | ln -f ${frelout[$i]} $tmp_data_catalog/${frelout[$i]} |
---|
| 4198 | else |
---|
| 4199 | mkdir $tmp_data_catalog/${frelout[$i]} |
---|
| 4200 | ln -f ${frelout[$i]}/* $tmp_data_catalog/${frelout[$i]} |
---|
| 4201 | fi |
---|
| 4202 | |
---|
[1289] | 4203 | # GENERATE AND SUBMIT BATCH-JOB |
---|
| 4204 | # FILE HAS TO BE DELETED FROM THE TEMPORARY DATA DIRECTORY |
---|
| 4205 | # DELETE OLD EXISTING FILES FROM THE ARCHIVE |
---|
[1] | 4206 | echo "cd $tmp_data_catalog" > archive_${frelout[$i]} |
---|
| 4207 | if [[ $files_for_pes = false ]] |
---|
| 4208 | then |
---|
| 4209 | echo "rm -rf \$PERM/${frelout[$i]}" >> archive_${frelout[$i]} |
---|
| 4210 | echo "cp ${frelout[$i]} \$PERM/${frelout[$i]}" >> archive_${frelout[$i]} |
---|
| 4211 | echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]} |
---|
| 4212 | else |
---|
| 4213 | echo "rm -rf \$PERM/${frelout[$i]}.tar" >> archive_${frelout[$i]} |
---|
| 4214 | echo "tar cvf \$PERM/${frelout[$i]}.tar ${frelout[$i]}" >> archive_${frelout[$i]} |
---|
| 4215 | echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]} |
---|
| 4216 | fi |
---|
| 4217 | |
---|
[1094] | 4218 | subjob -v -d -q cdata -X 0 -m 1000 -t 43200 -c $job_catalog $PORTOPT archive_${frelout[$i]} |
---|
[1] | 4219 | printf " Archiving of $tmp_data_catalog/${frelout[$i]} initiated (batch job submitted)\n" |
---|
| 4220 | file_saved=true |
---|
| 4221 | |
---|
| 4222 | elif [[ $archive_system = ut ]] |
---|
| 4223 | then |
---|
[1289] | 4224 | # ARCHIVING ONLY POSSIBLE VIA BATCH-JOB |
---|
| 4225 | # IN THE MEANTIME, FILE IS STORED IN THE TEMPORARY DATA DIRECTORY, |
---|
| 4226 | # BECAUSE MRUN'S CURRENT TEMPORARY WORKING DIRECTORY MAY ALREADY BE DELETED |
---|
| 4227 | # WHEN THE ARCHIVE-JOB IS EXECUTED |
---|
[1] | 4228 | [[ ! -d $tmp_data_catalog ]] && mkdir -p $tmp_data_catalog |
---|
| 4229 | chmod g+rx $tmp_data_catalog |
---|
| 4230 | if [[ $files_for_pes = false ]] |
---|
| 4231 | then |
---|
| 4232 | ln -f ${frelout[$i]} $tmp_data_catalog/${frelout[$i]} |
---|
| 4233 | else |
---|
| 4234 | mkdir $tmp_data_catalog/${frelout[$i]} |
---|
| 4235 | ln -f ${frelout[$i]}/* $tmp_data_catalog/${frelout[$i]} |
---|
| 4236 | fi |
---|
| 4237 | |
---|
[1289] | 4238 | # GENERATE AND SUBMIT BATCH-JOB |
---|
| 4239 | # FILE HAS TO BE DELETED FROM THE TEMPORARY DATA DIRECTORY |
---|
| 4240 | # DELETE OLD EXISTING FILES FROM THE ARCHIVE |
---|
[1] | 4241 | echo "cd $tmp_data_catalog" > archive_${frelout[$i]} |
---|
| 4242 | if [[ $files_for_pes = false ]] |
---|
| 4243 | then |
---|
| 4244 | echo "rm -rf \$UT/${frelout[$i]}" >> archive_${frelout[$i]} |
---|
| 4245 | echo "cp ${frelout[$i]} \$UT/${frelout[$i]}" >> archive_${frelout[$i]} |
---|
| 4246 | echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]} |
---|
| 4247 | else |
---|
| 4248 | echo "rm -rf \$UT/${frelout[$i]}.tar" >> archive_${frelout[$i]} |
---|
| 4249 | echo "tar cvf \$UT/${frelout[$i]}.tar ${frelout[$i]}" >> archive_${frelout[$i]} |
---|
| 4250 | echo "rm -rf ${frelout[$i]}" >> archive_${frelout[$i]} |
---|
| 4251 | fi |
---|
| 4252 | |
---|
[1094] | 4253 | subjob -v -c /pf/b/$usern/job_queue -d -q pp -X 0 -m 1000 -t 7200 $PORTOPT archive_${frelout[$i]} |
---|
[1] | 4254 | printf " Archiving of $tmp_data_catalog/${frelout[$i]} initiated (batch job submitted)\n" |
---|
| 4255 | file_saved=true |
---|
| 4256 | |
---|
| 4257 | else |
---|
| 4258 | printf "\n +++ archive_system=\"$archive_system\" archiving impossible!" |
---|
| 4259 | archive_save=false |
---|
| 4260 | fi |
---|
[1289] | 4261 | |
---|
| 4262 | # CREATE EMPTY FLAG-FILE OR -DIRECTORY |
---|
| 4263 | # IN ORDER TO NOTE THE RESPECTIVE CYCLE NUMBER ON THE ARCHIVE SYSTEM |
---|
| 4264 | # RESTART-JOBS ARE USING THESE EMPTY-DIRECTORIES TO GET THE CURRENT HIGHEST |
---|
| 4265 | # CYCLE NUMBER ON THE ARCHIVE SYSTEM (IN CASE THAT INFORMATIONS ARE DIFFICULT TO |
---|
| 4266 | # TO ACCESS FROM THE ARCHIVE-SYSTEM DIRECTLY)) |
---|
[1] | 4267 | if [[ $file_saved = true ]] |
---|
| 4268 | then |
---|
| 4269 | if [[ $files_for_pes = false ]] |
---|
| 4270 | then |
---|
| 4271 | cat /dev/null > ${pathout[$i]} |
---|
| 4272 | else |
---|
| 4273 | mkdir -p ${pathout[$i]} |
---|
| 4274 | fi |
---|
| 4275 | fi |
---|
[1289] | 4276 | |
---|
[1] | 4277 | fi |
---|
| 4278 | |
---|
[1289] | 4279 | # APPEND ON THIS MACHINE |
---|
[1] | 4280 | if [[ "${actionout[$i]}" = "a" ]] |
---|
| 4281 | then |
---|
[741] | 4282 | if [[ "${extout[$i]}" != " " && "${extout[$i]}" != "" ]] |
---|
| 4283 | then |
---|
| 4284 | printf "\n >>> OUTPUT: ${localout[$i]} append to ${pathout[$i]}.${extout[$i]}\n" |
---|
| 4285 | cat ${localout[$i]} >> ${pathout[$i]}.${extout[$i]} |
---|
| 4286 | else |
---|
| 4287 | printf "\n >>> OUTPUT: ${localout[$i]} append to ${pathout[$i]}\n" |
---|
| 4288 | cat ${localout[$i]} >> ${pathout[$i]} |
---|
| 4289 | fi |
---|
[1] | 4290 | fi |
---|
| 4291 | |
---|
[1289] | 4292 | # COPY ON THIS MACHINE |
---|
| 4293 | # COPY HAS TO BE USED, BECAUSE MOVE DOES NOT WORK IF FILE-ORIGIN AND TARGET ARE |
---|
| 4294 | # ON DIFFERENT FILE-SYSTEMS |
---|
[1] | 4295 | if [[ "${actionout[$i]}" = "" && $files_for_pes = false ]] |
---|
| 4296 | then |
---|
| 4297 | |
---|
[1289] | 4298 | # COPY IN CASE OF RUNS ON SINGLE CORES |
---|
[5] | 4299 | if [[ "${extout[$i]}" != " " && "${extout[$i]}" != "" ]] |
---|
[1] | 4300 | then |
---|
| 4301 | printf "\n >>> OUTPUT: ${localout[$i]} to ${pathout[$i]}.${extout[$i]}\n" |
---|
[149] | 4302 | if [[ $link_local_output = true ]] |
---|
| 4303 | then |
---|
| 4304 | printf " using ln -f\n" |
---|
| 4305 | ln -f ${localout[$i]} ${pathout[$i]}.${extout[$i]} |
---|
| 4306 | fi |
---|
| 4307 | # If "ln -f" fails of if "$link_local_output = false" do a normal "cp" |
---|
| 4308 | if [[ ! -f "${pathout[$i]}.${extout[$i]}" ]] |
---|
| 4309 | then |
---|
| 4310 | if [[ $link_local_output = true ]] |
---|
| 4311 | then |
---|
| 4312 | printf " ln failed, using cp...\n" |
---|
| 4313 | fi |
---|
| 4314 | cp ${localout[$i]} ${pathout[$i]}.${extout[$i]} |
---|
| 4315 | fi |
---|
[1] | 4316 | else |
---|
| 4317 | printf "\n >>> OUTPUT: ${localout[$i]} to ${pathout[$i]}\n" |
---|
[149] | 4318 | if [[ $link_local_output = true ]] |
---|
| 4319 | then |
---|
| 4320 | printf " using ln -f\n" |
---|
| 4321 | ln -f ${localout[$i]} ${pathout[$i]} |
---|
| 4322 | fi |
---|
| 4323 | # If "ln -f" fails of if "$link_local_output = false" do a normal "cp" |
---|
| 4324 | if [[ ! -f "${pathout[$i]}" ]] |
---|
| 4325 | then |
---|
| 4326 | if [[ $link_local_output = true ]] |
---|
| 4327 | then |
---|
| 4328 | printf " ln failed, using cp...\n" |
---|
| 4329 | fi |
---|
| 4330 | cp ${localout[$i]} ${pathout[$i]} |
---|
| 4331 | fi |
---|
[1] | 4332 | fi |
---|
| 4333 | |
---|
| 4334 | elif [[ "${actionout[$i]}" = "" && $files_for_pes = true ]] |
---|
| 4335 | then |
---|
| 4336 | |
---|
[1289] | 4337 | # FILES FROM THE DIFFERENT CORES ARE MOVED WITH ln-COMMAND TO THE PERMANENT DIRECTORY |
---|
| 4338 | # AS A FIRST STEP, THE PERMANENT DIRECTORY IS CREATED |
---|
[1] | 4339 | printf "\n >>> OUTPUT: ${localout[$i]}/_.... to ${pathout[$i]}\n" |
---|
[149] | 4340 | if [[ $link_local_output = true ]] |
---|
| 4341 | then |
---|
| 4342 | printf " using ln -f\n" |
---|
| 4343 | mkdir ${pathout[$i]} |
---|
| 4344 | cd ${localout[$i]} |
---|
| 4345 | for file in $(ls *) |
---|
| 4346 | do |
---|
| 4347 | ln -f $file ${pathout[$i]} |
---|
| 4348 | done |
---|
| 4349 | cd $TEMPDIR |
---|
| 4350 | fi |
---|
[1289] | 4351 | |
---|
| 4352 | # IF "ln -f" HAS FAILED OR IF "$link_local_output = false" DO A NORMAL COPY "cp -r" |
---|
[149] | 4353 | if [[ ! -f "${pathout[$i]}/_0000" ]] |
---|
| 4354 | then |
---|
| 4355 | if [[ $link_local_output = true ]] |
---|
| 4356 | then |
---|
| 4357 | printf " ln failed for .../_0000, using cp...\n" |
---|
| 4358 | fi |
---|
| 4359 | cp -r ${localout[$i]} ${pathout[$i]} |
---|
| 4360 | fi |
---|
[1] | 4361 | |
---|
| 4362 | fi |
---|
| 4363 | fi |
---|
| 4364 | done |
---|
| 4365 | if (( i != 0 )) |
---|
| 4366 | then |
---|
| 4367 | if [[ $transfer_problems = true ]] |
---|
| 4368 | then |
---|
[1289] | 4369 | printf "\n$dashes\n *** OUTPUT-files saved" |
---|
[1] | 4370 | printf "\n +++ WARNING: some data transfers failed! \n" |
---|
| 4371 | else |
---|
[1289] | 4372 | printf "\n$dashes\n *** all OUTPUT-files saved \n" |
---|
[1] | 4373 | fi |
---|
| 4374 | fi |
---|
| 4375 | |
---|
| 4376 | |
---|
[1289] | 4377 | # IF REQUIRED, START A RESTART-JOB |
---|
| 4378 | # FILE CONTINUE_RUN MUST HAVE BEEN CREATED BY THE EXECUTABLE (PALM) |
---|
[1] | 4379 | if [[ -f CONTINUE_RUN ]] |
---|
| 4380 | then |
---|
| 4381 | |
---|
| 4382 | if [[ $archive_save = true ]] |
---|
| 4383 | then |
---|
| 4384 | |
---|
[1289] | 4385 | # ADD RESTART-OPTIONS TO THE MRUN-CALL (IF THEY ARE NOT USED ALREADY): |
---|
| 4386 | # -C TELLS MRUN THAT IT IS A RESTART-RUN |
---|
| 4387 | # -v SILENT MODE WITHOUT INTERACTIVE QUERIES |
---|
| 4388 | # -n BATCH-MODE (IMPORTANT ONLY IN CASE OF BATCH JOBS ON THE LOCAL MACHINE) |
---|
[1] | 4389 | [[ $(echo $mc | grep -c "\-C") = 0 ]] && mc="$mc -C" |
---|
| 4390 | [[ $(echo $mc | grep -c "\-v") = 0 ]] && mc="$mc -v" |
---|
| 4391 | [[ $(echo $mc | grep -c "\-b") = 0 ]] && mc="$mc -b" |
---|
| 4392 | if [[ $(echo $mc | grep -c "#") != 0 ]] |
---|
| 4393 | then |
---|
| 4394 | mc=`echo $mc | sed 's/#/f/g'` |
---|
| 4395 | fi |
---|
| 4396 | |
---|
| 4397 | |
---|
[1289] | 4398 | # START THE RESTART-JOB |
---|
[1468] | 4399 | printf "\n\n *** initiating restart-run on \"$return_address\" using command:\n" |
---|
[1] | 4400 | echo " $mc" |
---|
[1289] | 4401 | printf "\n$dashes\n" |
---|
[1] | 4402 | if [[ $localhost != $fromhost ]] |
---|
| 4403 | then |
---|
| 4404 | |
---|
[1468] | 4405 | if [[ $localhost = lccrayb || $localhost = lccrayh || $localhost = nech || $localhost = ibmh || $localhost = ibmkisti || $localhost = ibmku || $localhost = ibms || $localhost = lcflow || $localhost = lckyu* || $localhost = lcxe6 ]] |
---|
[1] | 4406 | then |
---|
| 4407 | echo "*** ssh will be used to initiate restart-runs!" |
---|
[1468] | 4408 | echo " return_address=\"$return_address\" " |
---|
[1] | 4409 | echo " return_username=\"$return_username\" " |
---|
[1468] | 4410 | if [[ $(echo $return_address | grep -c "130.75.105") = 1 ]] |
---|
[1] | 4411 | then |
---|
[1190] | 4412 | if [[ $localhost = ibmh ]] |
---|
| 4413 | then |
---|
[1468] | 4414 | ssh $SSH_PORTOPT $usern@136.172.40.15 "ssh $SSH_PORTOPT $return_address -l $return_username \". \\\$HOME/.profile; module load intel-compiler hdf5 netcdf; PATH=\\\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc\" " |
---|
[1255] | 4415 | elif [[ $localhost = lccrayb ]] |
---|
| 4416 | then |
---|
[1468] | 4417 | ssh $usern@blogin1 "ssh $SSH_PORTOPT $return_address -l $return_username \". \\\$HOME/.profile; module load intel-compiler hdf5 netcdf; PATH=\\\$PATH:$LOCAL_MRUN_PATH; export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc\" " |
---|
[1274] | 4418 | elif [[ $localhost = lccrayh ]] |
---|
| 4419 | then |
---|
[1468] | 4420 | ssh $usern@hlogin1 "ssh $SSH_PORTOPT $return_address -l $return_username \". \\\$HOME/.profile; module load intel-compiler hdf5 netcdf; PATH=\\\$PATH:$LOCAL_MRUN_PATH; export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc\" " |
---|
| 4421 | elif [[ $localhost = lcxe6 ]] |
---|
| 4422 | then |
---|
| 4423 | ssh $usern@hexagon "ssh $SSH_PORTOPT $return_address -l $return_username \". \\\$HOME/.profile; module load intel-compiler hdf5 netcdf; PATH=\\\$PATH:$LOCAL_MRUN_PATH; export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc\" " |
---|
[1190] | 4424 | else |
---|
[1468] | 4425 | ssh $SSH_PORTOPT $return_address -l $return_username ". \\\$HOME/.profile; module load intel-compiler hdf5 netcdf; PATH=\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc " |
---|
[1190] | 4426 | fi |
---|
[1] | 4427 | else |
---|
[693] | 4428 | if [[ $localhost = ibmkisti ]] |
---|
| 4429 | then |
---|
[1468] | 4430 | ssh $SSH_PORTOPT $usern@gaiad "ssh $SSH_PORTOPT $return_address -l $return_username \"PATH=\\\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc\" " |
---|
[1255] | 4431 | elif [[ $localhost = lcflow ]] |
---|
| 4432 | then |
---|
[1468] | 4433 | /usr/bin/ssh $SSH_PORTOPT $return_address -l $return_username "PATH=\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc " |
---|
[1255] | 4434 | elif [[ $localhost = lccrayb ]] |
---|
| 4435 | then |
---|
[1468] | 4436 | ssh $usern@blogin1 "ssh $SSH_PORTOPT $return_address -l $return_username \"PATH=\\\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc\" " |
---|
[1274] | 4437 | elif [[ $localhost = lccrayh ]] |
---|
| 4438 | then |
---|
[1468] | 4439 | ssh $usern@hlogin1 "ssh $SSH_PORTOPT $return_address -l $return_username \"PATH=\\\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc\" " |
---|
[693] | 4440 | else |
---|
[1468] | 4441 | ssh $SSH_PORTOPT $return_address -l $return_username "PATH=\$PATH:$LOCAL_MRUN_PATH;export PALM_BIN=$LOCAL_MRUN_PATH;cd $LOCAL_PWD; $mc " |
---|
[693] | 4442 | fi |
---|
[1] | 4443 | fi |
---|
| 4444 | else |
---|
| 4445 | printf "\n +++ no restart mechanism available for host \"$localhost\" " |
---|
| 4446 | locat=restart; exit |
---|
| 4447 | fi |
---|
| 4448 | |
---|
[1289] | 4449 | # WAIT TO ALLOW THE RESTART-JOB TO BE QUEUED, BEFORE THE CURRENT JOB IS FINISHED |
---|
[399] | 4450 | if [[ $queue = special1q ]] |
---|
| 4451 | then |
---|
| 4452 | sleep 120 |
---|
| 4453 | else |
---|
| 4454 | sleep 30 |
---|
| 4455 | fi |
---|
[1] | 4456 | |
---|
| 4457 | else |
---|
| 4458 | |
---|
[1289] | 4459 | # JOBS RUNNING (AND STARTED) ON THE LOCAL MACHINE CAN DIRECTLY CALL MRUN (WITHOUT |
---|
| 4460 | # USING SSH) |
---|
[1] | 4461 | cd $LOCAL_PWD |
---|
[1289] | 4462 | if [[ $localhost = lckyuh ]] |
---|
[108] | 4463 | then |
---|
[1103] | 4464 | printf "\n +++ WARNING: no restart mechanism available for host \"$localhost\" " |
---|
| 4465 | printf "\n please restart job manually using command:\n" |
---|
| 4466 | printf "\n \"$mc\" " |
---|
[108] | 4467 | else |
---|
[1289] | 4468 | eval $mc # THE ' MUST BE EVALUATED |
---|
[108] | 4469 | fi |
---|
[1] | 4470 | cd - > /dev/null |
---|
| 4471 | fi |
---|
[1103] | 4472 | if [[ $localhost = lckyuh ]] |
---|
| 4473 | then |
---|
[1289] | 4474 | printf "\n$dashes\n *** restart-run to be initiated manually\n" |
---|
[1103] | 4475 | else |
---|
[1289] | 4476 | printf "\n$dashes\n *** restart-run initiated \n" |
---|
[1103] | 4477 | fi |
---|
[1] | 4478 | |
---|
| 4479 | |
---|
[1289] | 4480 | # DELETE INPUT-(RESTART)FILES, WHICH HAVE BEEN FETCHED FROM THE TEMPORARY DATA |
---|
| 4481 | # DIRECTORY, BACAUSE THEY ARE NOT REQUIRED BY THE RESTART-JOB. |
---|
| 4482 | # THIS IS DONE IN ORDER TO AVOID EXCEEDING DISC QUOTAS OR DISC SPACE (RESTART-FILES |
---|
| 4483 | # MAY BE VERY HUGE) |
---|
[1] | 4484 | (( i = 0 )) |
---|
| 4485 | while (( i < iin )) |
---|
| 4486 | do |
---|
| 4487 | (( i = i + 1 )) |
---|
| 4488 | if [[ "${got_tmp[$i]}" = true && $keep_data_from_previous_run = false ]] |
---|
| 4489 | then |
---|
| 4490 | rm -r $tmp_data_catalog/${frelin[$i]} |
---|
| 4491 | fi |
---|
| 4492 | done |
---|
| 4493 | |
---|
| 4494 | else |
---|
| 4495 | |
---|
| 4496 | printf "\n +++ no restart-run possible, since errors occured" |
---|
| 4497 | printf "\n during the archive process" |
---|
| 4498 | fi |
---|
| 4499 | |
---|
| 4500 | fi |
---|
| 4501 | |
---|
| 4502 | |
---|
| 4503 | |
---|
[1289] | 4504 | # SEND EMAIL NOTIFICATION ABOUT THE FINISHED RUN |
---|
[352] | 4505 | if [[ "$email_notification" != "none" ]] |
---|
[1] | 4506 | then |
---|
| 4507 | |
---|
| 4508 | if [[ $localhost != $fromhost ]] |
---|
| 4509 | then |
---|
| 4510 | if [[ -f CONTINUE_RUN ]] |
---|
| 4511 | then |
---|
| 4512 | echo "PALM restart run necessary" > email_text |
---|
| 4513 | echo "description header of actual run:" >> email_text |
---|
| 4514 | cat CONTINUE_RUN >> email_text |
---|
| 4515 | echo "mrun-command to restart:" >> email_text |
---|
| 4516 | echo "$mc" >> email_text |
---|
| 4517 | else |
---|
| 4518 | echo "PALM run with base filename \"$fname\" on host \"$localhost\" finished" > email_text |
---|
| 4519 | fi |
---|
| 4520 | mail $email_notification < email_text |
---|
| 4521 | printf "\n *** email notification sent to \"$email_notification\" " |
---|
| 4522 | fi |
---|
| 4523 | fi |
---|
| 4524 | |
---|
| 4525 | |
---|
| 4526 | |
---|
[1289] | 4527 | # ALL ACTIONS FINISHED, TEMPORARY WORKING-DIRECTORY CAN BE DELETED |
---|
[1] | 4528 | cd $HOME |
---|
| 4529 | [[ $delete_temporary_catalog = true ]] && rm -rf $TEMPDIR |
---|
| 4530 | |
---|
| 4531 | else |
---|
| 4532 | |
---|
| 4533 | |
---|
[1289] | 4534 | # PREPARING ACTIONS, |
---|
| 4535 | # IF A BATCH-JOB IS TO BE GENERATED AND STARTED ON A REMOTE-MACHINE GERECHNET |
---|
[1] | 4536 | |
---|
[1289] | 4537 | # BUILD THE MRUN-COMMAND TO BE CALLED IN THE BATCH-JOB ON THE REMOTE-MACHINE |
---|
[1468] | 4538 | mrun_com="$mrun_script_name -a $afname -c $config_file -d $fname -h $host -H $fromhost -m $memory -t $cpumax -q $queue -R $return_address -U $return_username -u $remote_username" |
---|
[1] | 4539 | [[ "$cpp_opts" != "" ]] && mrun_com=${mrun_com}" -D \"$cpp_opts\"" |
---|
[79] | 4540 | [[ "$global_revision" != "" ]] && mrun_com=${mrun_com}" -G \"$global_revision\"" |
---|
[123] | 4541 | [[ $group_number != none ]] && mrun_com=${mrun_com}" -g $group_number" |
---|
[1] | 4542 | [[ $do_compile = true ]] && mrun_com=${mrun_com}" -s \"$source_list\"" |
---|
| 4543 | [[ "$input_list" != "" ]] && mrun_com=${mrun_com}" -i \"$input_list\"" |
---|
| 4544 | [[ $ignore_archive_error = true ]] && mrun_com=${mrun_com}" -I" |
---|
| 4545 | [[ $keep_data_from_previous_run = true ]] && mrun_com=${mrun_com}" -k" |
---|
| 4546 | [[ "$additional_conditions" != "" ]] && mrun_com=${mrun_com}" -K \"$additional_conditions\"" |
---|
| 4547 | [[ "$output_list" != "" ]] && mrun_com=${mrun_com}" -o \"$output_list\"" |
---|
| 4548 | [[ "$read_from_config" = false ]] && mrun_com=${mrun_com}" -S" |
---|
| 4549 | [[ $do_trace = true ]] && mrun_com=${mrun_com}" -x" |
---|
| 4550 | [[ "$numprocs" != "" ]] && mrun_com=${mrun_com}" -X $numprocs" |
---|
| 4551 | if [[ $use_openmp = true ]] |
---|
| 4552 | then |
---|
[622] | 4553 | mrun_com=${mrun_com}" -O $threads_per_task" |
---|
[1] | 4554 | fi |
---|
[759] | 4555 | [[ "$tasks_per_node" != "" ]] && mrun_com=${mrun_com}" -T $tasks_per_node" |
---|
[397] | 4556 | [[ $store_on_archive_system = true ]] && mrun_com=${mrun_com}" -A" |
---|
[1] | 4557 | [[ $package_list != "" ]] && mrun_com=${mrun_com}" -p \"$package_list\"" |
---|
| 4558 | [[ $return_password != "" ]] && mrun_com=${mrun_com}" -P $return_password" |
---|
| 4559 | [[ $delete_temporary_catalog = false ]] && mrun_com=${mrun_com}" -B" |
---|
[127] | 4560 | [[ $node_usage != default && "$(echo $node_usage | cut -c1-3)" != "sla" && $node_usage != novice ]] && mrun_com=${mrun_com}" -n $node_usage" |
---|
[291] | 4561 | [[ "$ocean_file_appendix" = true ]] && mrun_com=${mrun_com}" -y" |
---|
[206] | 4562 | [[ $run_coupled_model = true ]] && mrun_com=${mrun_com}" -Y \"$coupled_dist\"" |
---|
[920] | 4563 | [[ "$check_namelist_files" = false ]] && mrun_com=${mrun_com}" -z" |
---|
| 4564 | [[ "$combine_plot_fields" = false ]] && mrun_com=${mrun_com}" -Z" |
---|
[759] | 4565 | [[ "$max_par_io_str" != "" ]] && mrun_com=${mrun_com}" -w $max_par_io_str" |
---|
[1] | 4566 | if [[ $do_remote = true ]] |
---|
| 4567 | then |
---|
| 4568 | printf "\n>>>> MRUN-command on execution host:\n>>>> $mrun_com \n" |
---|
| 4569 | fi |
---|
| 4570 | |
---|
| 4571 | |
---|
[1289] | 4572 | # CREATE EXECUTABLE FOR BATCH JOB |
---|
[1199] | 4573 | if [[ $create_executable_for_batch = true && $restart_run != true ]] |
---|
| 4574 | then |
---|
| 4575 | |
---|
| 4576 | printf "\n *** creating the executable for batch job\n" |
---|
| 4577 | |
---|
[1289] | 4578 | # METHOD ONLY WORKS FOR BATCH JOBS ON LOCAL HOSTS |
---|
[1199] | 4579 | if [[ $host != $localhost ]] |
---|
| 4580 | then |
---|
| 4581 | printf "\n +++ creation of executables is only allowed for batch jobs on local hosts." |
---|
| 4582 | printf "\n Please set create_executable_for_batch = false in the config-file.\n" |
---|
| 4583 | locat=create_executable; exit |
---|
| 4584 | fi |
---|
| 4585 | |
---|
| 4586 | mkdir $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE |
---|
| 4587 | cd $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE |
---|
| 4588 | |
---|
| 4589 | cp $make_depository . |
---|
| 4590 | tar -xf $make_depository > /dev/null 2>&1 |
---|
| 4591 | cp ../* . > /dev/null 2>&1 |
---|
| 4592 | |
---|
| 4593 | make $mopts -f Makefile PROG=a.out F90=$compiler_name COPT="$cpp_options" F90FLAGS="$fopts" LDFLAGS="$lopts" |
---|
| 4594 | |
---|
| 4595 | if [[ $? != 0 || "$compile_error" = true || "$module_compile_error" = true ]] |
---|
| 4596 | then |
---|
| 4597 | printf "\n +++ error occured while compiling or linking" |
---|
| 4598 | locat=compile |
---|
| 4599 | exit |
---|
| 4600 | fi |
---|
| 4601 | |
---|
| 4602 | mv a.out .. |
---|
| 4603 | cd - > /dev/null 2>&1 |
---|
| 4604 | rm -rf $working_directory/SOURCES_FOR_RUN_${fname}/TMPDIR_FOR_CREATING_EXECUTABLE |
---|
| 4605 | |
---|
| 4606 | printf " *** executable created in \"$working_directory/SOURCES_FOR_RUN_${fname}\"\n " |
---|
| 4607 | |
---|
| 4608 | fi |
---|
| 4609 | |
---|
| 4610 | |
---|
[1289] | 4611 | # BUILD THE JOB-SCRIPTS ON FILE jobfile |
---|
[1] | 4612 | jobfile=jobfile.$RANDOM |
---|
| 4613 | |
---|
| 4614 | |
---|
[1289] | 4615 | # CREATE TEMPORARY DIRECTORY AND SWITCH TO IT |
---|
[1] | 4616 | echo "mkdir $TEMPDIR" >> $jobfile |
---|
| 4617 | echo "cd $TEMPDIR" >> $jobfile |
---|
| 4618 | |
---|
| 4619 | |
---|
[1289] | 4620 | # ACTIVATE ERROR-TRACEBACK |
---|
[1] | 4621 | if [[ $do_trace = true ]] |
---|
| 4622 | then |
---|
| 4623 | echo "set -x" >> $jobfile |
---|
| 4624 | else |
---|
| 4625 | echo "set +vx" >> $jobfile |
---|
| 4626 | fi |
---|
| 4627 | |
---|
| 4628 | |
---|
[1289] | 4629 | # INITIALIZE THE ENVIRONMENT AND LOAD MODULES |
---|
[1043] | 4630 | if [[ "$init_cmds" != "" ]] |
---|
| 4631 | then |
---|
| 4632 | echo "$init_cmds" >> $jobfile |
---|
| 4633 | fi |
---|
| 4634 | if [[ "$module_calls" != "" ]] |
---|
| 4635 | then |
---|
| 4636 | echo "$module_calls" >> $jobfile |
---|
| 4637 | fi |
---|
| 4638 | |
---|
| 4639 | |
---|
[1289] | 4640 | # PROVIDE SOURCE-CODE FILES, MRUN-SCRIPT AND CONFIGURATION-FILE FOR THE JOB |
---|
| 4641 | # then-CLAUSE: FILES ARE COLLECTED IN THE SOURCES_FOR_RUN_... DIRECTORY ON THE LOCAL HOST, |
---|
| 4642 | # WHICH IS THEN FETCHED FROM THE BATCH-JOB BY USING cp/scp |
---|
| 4643 | # THE SOURCE-CODE FILES ALREADY EXIST IN THIS DIRECTORY |
---|
| 4644 | # else-CLAUSE: FILE-CONTENTS ARE PUT INTO THE JOB-FILE AS HERE-DOCUMENTS |
---|
| 4645 | # THIS MAY CREATE A QUITE LARGE JOB-FILE, WHICH CAN CAUSE PROBLEMS WITH SOME |
---|
| 4646 | # QUEUEING-SYSTEMS |
---|
| 4647 | if [[ $host = ibmkisti || $host = lccrayb || $host = lccrayf || $host = lccrayh ]] |
---|
[1] | 4648 | then |
---|
| 4649 | |
---|
[1289] | 4650 | # COPY CONFIGURATION-FILE AND MRUN-SCRIPT INTO THE SOURCES_FOR_RUN... DIRECTORY |
---|
[191] | 4651 | if [[ $restart_run != true ]] |
---|
| 4652 | then |
---|
| 4653 | cp $config_file $working_directory/SOURCES_FOR_RUN_$fname |
---|
| 4654 | cp ${PALM_BIN}/$mrun_script_name $working_directory/SOURCES_FOR_RUN_$fname |
---|
| 4655 | fi |
---|
[1] | 4656 | |
---|
[1289] | 4657 | # COPY THE SOURCES_FOR_RUN... DIRECTORY FROM THE LOCAL HOST TO THE JOB VIA scp |
---|
| 4658 | # (then-CLAUSE: JOBS ON THE LOCAL HOST CAN JUST USE cp) |
---|
[193] | 4659 | echo "set -x" >> $jobfile |
---|
[693] | 4660 | if [[ $host = $localhost ]] |
---|
| 4661 | then |
---|
[1199] | 4662 | |
---|
| 4663 | # DUE TO UNKNOWN REASONS, COPY WITH cp COMMAND CREATES CORRUPT |
---|
| 4664 | # FILES ON CRAY XC30 SYSTEMS (CSC HELSINKI), rsync IS USED INSTEAD |
---|
[1281] | 4665 | if [[ $(echo $host | cut -c1-6) = lccray ]] |
---|
| 4666 | then |
---|
| 4667 | echo "rsync -av -t $working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile |
---|
| 4668 | else |
---|
| 4669 | echo "cp -r $working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile |
---|
| 4670 | fi |
---|
[1199] | 4671 | |
---|
[693] | 4672 | else |
---|
[1255] | 4673 | if [[ $host = ibmkisti ]] |
---|
[693] | 4674 | then |
---|
[1289] | 4675 | # ON KISTI'S IBM FIREWALL IS ONLY OPENED ON INTERACTIVE NODE |
---|
[693] | 4676 | echo "localdir=\`pwd\`" >> $jobfile |
---|
[1468] | 4677 | echo "ssh $SSH_PORTOPT $remote_username@gaiad \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile |
---|
[1255] | 4678 | elif [[ $host = lccrayb ]] |
---|
| 4679 | then |
---|
| 4680 | echo "localdir=\`pwd\`" >> $jobfile |
---|
[1468] | 4681 | echo "ssh $SSH_PORTOPT $remote_username@blogin1 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile |
---|
[1274] | 4682 | elif [[ $host = lccrayh ]] |
---|
| 4683 | then |
---|
| 4684 | echo "localdir=\`pwd\`" >> $jobfile |
---|
[1468] | 4685 | echo "ssh $SSH_PORTOPT $remote_username@hlogin1 \"cd \$localdir; scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname .\" " >> $jobfile |
---|
[1274] | 4686 | |
---|
[1255] | 4687 | else |
---|
[1468] | 4688 | echo "scp $PORTOPT -r $return_username@$return_address:$working_directory/SOURCES_FOR_RUN_$fname ." >> $jobfile |
---|
[693] | 4689 | fi |
---|
| 4690 | fi |
---|
[193] | 4691 | echo "export SOURCES_COMPLETE=true" >> $jobfile |
---|
[1] | 4692 | |
---|
[1289] | 4693 | # MOVE MRUN-SCRIPT AND CONFIGURATION-FILE FROM THE SOURCES_FOR_RUN... DIRECTORY TO THE |
---|
| 4694 | # WORKING DIRECTORY OF THE JOB |
---|
[193] | 4695 | echo "mv SOURCES_FOR_RUN_$fname/$config_file . " >> $jobfile |
---|
| 4696 | echo "mv SOURCES_FOR_RUN_$fname/$mrun_script_name . " >> $jobfile |
---|
[1199] | 4697 | echo "chmod u+rwx $mrun_script_name" >> $jobfile |
---|
[193] | 4698 | echo "execute_mrun=true" >> $jobfile |
---|
| 4699 | echo " " >> $jobfile |
---|
| 4700 | |
---|
[191] | 4701 | else |
---|
| 4702 | |
---|
[1289] | 4703 | # PROVIDE SOURCE-CODE FILES AND MAKEFILE AS HERE DOCUMENT |
---|
[191] | 4704 | if [[ $do_compile = true ]] |
---|
| 4705 | then |
---|
| 4706 | |
---|
| 4707 | source_catalog=SOURCES_FOR_RUN_$fname |
---|
| 4708 | |
---|
[1289] | 4709 | # CREATE SOURCES_FOR_RUN... DIRECTORY TO STORE THE SOURCE CODE FILES AND THE MAKEFILE |
---|
[191] | 4710 | echo "mkdir SOURCES_FOR_RUN_$fname" >> $jobfile |
---|
| 4711 | echo "export SOURCES_COMPLETE=true" >> $jobfile |
---|
| 4712 | echo "cd SOURCES_FOR_RUN_$fname" >> $jobfile |
---|
| 4713 | |
---|
| 4714 | for filename in $source_list |
---|
| 4715 | do |
---|
[1289] | 4716 | # BACKSLASH IS USED FOR MASKING |
---|
[191] | 4717 | echo "cat > $filename << \"%END%\"" >> $jobfile |
---|
| 4718 | cat $source_catalog/$filename >> $jobfile |
---|
| 4719 | echo " " >> $jobfile |
---|
| 4720 | echo "%END%" >> $jobfile |
---|
| 4721 | echo " " >> $jobfile |
---|
| 4722 | done |
---|
| 4723 | |
---|
[1289] | 4724 | # BACKSLASH IS USED FOR MASKING |
---|
[191] | 4725 | echo "cat > Makefile << \"%END%\"" >> $jobfile |
---|
| 4726 | cat $source_catalog/Makefile >> $jobfile |
---|
[1] | 4727 | echo " " >> $jobfile |
---|
| 4728 | echo "%END%" >> $jobfile |
---|
| 4729 | echo " " >> $jobfile |
---|
| 4730 | |
---|
[191] | 4731 | echo "cd - > /dev/null" >> $jobfile |
---|
[1] | 4732 | |
---|
[191] | 4733 | fi |
---|
[1] | 4734 | |
---|
| 4735 | |
---|
[1289] | 4736 | # PROVIDE THE CONFIGURATION-FILE AS HERE-DOCUMENT |
---|
| 4737 | # BACKSLASH IS USED FOR MASKING |
---|
| 4738 | # LINES WITH #$ IN THE CONFIGURATION-FILE, COMING FROM THE SVN KEYWORD SUBSTITUTION, |
---|
| 4739 | # ARE REMOVED FROM THE FILE IN ORDER TO AVOID PROBLEMS WITH THE SGE BATCH SYSTEM |
---|
[191] | 4740 | echo "cat > $config_file << \"%END%\"" >> $jobfile |
---|
[1101] | 4741 | if [[ $host = lckyuh ]] |
---|
| 4742 | then |
---|
[1289] | 4743 | # NO CROSS-COMPILER ON COMPUTE NODE |
---|
[1101] | 4744 | sed 's/frtpx/frt/g' $config_file >> $jobfile |
---|
| 4745 | else |
---|
| 4746 | sed 's/#$.*//g' $config_file >> $jobfile |
---|
| 4747 | fi |
---|
[191] | 4748 | echo "%END%" >> $jobfile |
---|
| 4749 | echo " " >> $jobfile |
---|
[1] | 4750 | |
---|
| 4751 | |
---|
[1289] | 4752 | # PROVIDE THE MRUN-SCRIPTS AS HERE-DOCUMENT |
---|
| 4753 | # BACKSLASH IS USED FOR MASKING |
---|
[1101] | 4754 | echo "cat > $mrun_script_name <<\"%END%\"" >> $jobfile |
---|
[1103] | 4755 | if [[ $host = lckyuh ]] |
---|
| 4756 | then |
---|
| 4757 | sed 's/\/bin\/ksh/\/bin\/bash/g' ${PALM_BIN}/$mrun_script_name >> $jobfile |
---|
| 4758 | else |
---|
| 4759 | cat ${PALM_BIN}/$mrun_script_name >> $jobfile |
---|
| 4760 | fi |
---|
[1101] | 4761 | echo "%END%" >> $jobfile |
---|
[191] | 4762 | echo "chmod u+x $mrun_script_name" >> $jobfile |
---|
| 4763 | echo "execute_mrun=true" >> $jobfile |
---|
| 4764 | echo " " >> $jobfile |
---|
[1] | 4765 | |
---|
| 4766 | fi |
---|
| 4767 | |
---|
[191] | 4768 | |
---|
[1289] | 4769 | # GET REQUIRED INPUT-FILES BY SCP OR BY SENDING THEM WITH THE JOB AS HERE-DOCUMENT |
---|
| 4770 | # PUT THESE FILES INTO THE USER'S RESPECTIVE PERMANENT DIRECTORIES ON THE REMOTE-HOST |
---|
| 4771 | # IF THE DIRECTORIES DO NOT EXIST, TRY TO CREATE THEM |
---|
[1] | 4772 | if [[ $do_remote = true ]] |
---|
| 4773 | then |
---|
| 4774 | (( i = 0 )) |
---|
| 4775 | while (( i < iin )) |
---|
| 4776 | do |
---|
| 4777 | (( i = i + 1 )) |
---|
| 4778 | echo "[[ ! -d ${pathin[$i]} ]] && mkdir -p ${pathin[$i]}" >> $jobfile |
---|
| 4779 | if [[ "${transin[$i]}" = job ]] |
---|
| 4780 | then |
---|
| 4781 | echo "cat > ${remotepathin[$i]} <<\"%END%\"" >> $jobfile |
---|
| 4782 | eval cat ${pathin[$i]}/${frelin[$i]} >> $jobfile |
---|
| 4783 | echo " " >> $jobfile |
---|
| 4784 | echo "%END%" >> $jobfile |
---|
| 4785 | else |
---|
[1468] | 4786 | echo "batch_scp $PORTOPT -b -o -g -s -u $return_username $return_address ${remotepathin[$i]} \"${pathin[$i]}\" ${frelin[$i]}" >> $jobfile |
---|
[1] | 4787 | fi |
---|
| 4788 | |
---|
[1289] | 4789 | # CHECK, IF FILE COULD BE CREATED |
---|
[1] | 4790 | echo "if [[ \$? = 1 ]]" >> $jobfile |
---|
| 4791 | echo "then" >> $jobfile |
---|
| 4792 | echo " echo \" \" " >> $jobfile |
---|
| 4793 | echo " echo \"+++ file ${remotepathin[$i]} could not be created\" " >> $jobfile |
---|
| 4794 | echo " echo \" please check, if directory exists on $host!\" " >> $jobfile |
---|
| 4795 | echo " echo \"+++ MRUN will not be continued\" " >> $jobfile |
---|
| 4796 | echo " execute_mrun=false" >> $jobfile |
---|
| 4797 | echo "fi" >> $jobfile |
---|
| 4798 | done |
---|
| 4799 | fi |
---|
| 4800 | |
---|
[1289] | 4801 | # PROVIDE NAME OF THE CURRENT WORKING-DIRECTORY ON THE LOCAL MACHINE (FROM WHERE THE JOB IS |
---|
| 4802 | # STARTED) BY SETTING AN ENVIRONMENT-VARIABLE. THIS INFORMATION IS USED IN THE JOB BY MRUN |
---|
| 4803 | # IN CASE THAT RESTART-RUNS HAVE TO BE GENERATED |
---|
[1] | 4804 | echo "LOCAL_PWD=$working_directory" >> $jobfile |
---|
| 4805 | echo "export LOCAL_PWD" >> $jobfile |
---|
| 4806 | |
---|
[1289] | 4807 | # PROVIDE THE PATH OF THE LOCAL MRUN-SCRIPT FOR THE SAME REASON |
---|
[22] | 4808 | echo "LOCAL_MRUN_PATH=$PALM_BIN" >> $jobfile |
---|
[1] | 4809 | echo "export LOCAL_MRUN_PATH" >> $jobfile |
---|
| 4810 | |
---|
[1289] | 4811 | # lcflow ALSO REQUIRES TO PROVIDE PATH FOR THE PALM-SCRIPTS |
---|
| 4812 | if [[ $host = lcflow || $localhost = lcflow ]] |
---|
[66] | 4813 | then |
---|
[1099] | 4814 | echo "export PALM_BIN=$PALM_BIN" | sed -e 's:'$HOME':$HOME:' >> $jobfile |
---|
| 4815 | echo "export PATH=\$PATH:\$PALM_BIN" >> $jobfile |
---|
[66] | 4816 | fi |
---|
[1] | 4817 | |
---|
[1289] | 4818 | # CALL MRUN WITHIN THE JOB (SETTING QUEUE IS A WORKAROUND FOR ibmkisti) |
---|
| 4819 | # AS FINAL ACTION, REMOVE THE TEMPORARY DIRECTORY CREATED AT THE BEGINNING OF THE JOB |
---|
[1101] | 4820 | echo "set -x" >> $jobfile |
---|
| 4821 | echo "queue=$queue" >> $jobfile |
---|
[1] | 4822 | echo "[[ \$execute_mrun = true ]] && ./$mrun_com" >> $jobfile |
---|
[1101] | 4823 | echo 'ls -al; echo `pwd`' >> $jobfile |
---|
| 4824 | echo "cd \$HOME" >> $jobfile |
---|
| 4825 | echo "rm -rf $TEMPDIR" >> $jobfile |
---|
[1] | 4826 | |
---|
| 4827 | |
---|
| 4828 | |
---|
| 4829 | |
---|
[1289] | 4830 | # START THE JOB USING SUBJOB-COMMAND |
---|
[1] | 4831 | if [[ $silent = false ]] |
---|
| 4832 | then |
---|
| 4833 | printf "\n " |
---|
| 4834 | else |
---|
| 4835 | printf "\n\n" |
---|
| 4836 | fi |
---|
| 4837 | |
---|
[1094] | 4838 | subjob $job_on_file -h $host -u $remote_username -g $group_number -q $queue -m $memory -N $node_usage -t $cpumax $XOPT $TOPT $OOPT -n $fname -v -c $job_catalog -e $email_notification $PORTOPT $jobfile |
---|
[1] | 4839 | rm -rf $jobfile |
---|
| 4840 | |
---|
| 4841 | |
---|
[1289] | 4842 | fi # END OF REMOTE-PART |
---|