Mercurial > repos > siwaa > gama

annotate ESSAISENCOURS.txt @ 21:1a7041dae86a draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
author siwaa
date Mon, 10 Jun 2024 18:27:46 +0000
parents 13a692e5a445
children 50c9bccdbb22
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
3
e3153cc69e41 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 67d85c013c62c16392b4796af86836b1334f2eef-dirty
siwaa
parents:
diff changeset
1 #------------------------------------------------------------------------------
12
614bed83ba5d planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 11
diff changeset
2 # ESSAIS Vendredi 7 juin
614bed83ba5d planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 11
diff changeset
3 #------------------------------------------------------------------------------
3
e3153cc69e41 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 67d85c013c62c16392b4796af86836b1334f2eef-dirty
siwaa
parents:
diff changeset
4 <tool id="gama_tool" name="gama" version="1.0.0b">
e3153cc69e41 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 67d85c013c62c16392b4796af86836b1334f2eef-dirty
siwaa
parents:
diff changeset
5
e3153cc69e41 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 67d85c013c62c16392b4796af86836b1334f2eef-dirty
siwaa
parents:
diff changeset
6 8000 -> 6868
e3153cc69e41 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 67d85c013c62c16392b4796af86836b1334f2eef-dirty
siwaa
parents:
diff changeset
7
12
614bed83ba5d planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 11
diff changeset
8 => RES : tourne infini
3
e3153cc69e41 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 67d85c013c62c16392b4796af86836b1334f2eef-dirty
siwaa
parents:
diff changeset
9
e3153cc69e41 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 67d85c013c62c16392b4796af86836b1334f2eef-dirty
siwaa
parents:
diff changeset
10 #------------------------------------------------------------------------------
11
8623205348e5 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 67d85c013c62c16392b4796af86836b1334f2eef-dirty
siwaa
parents: 10
diff changeset
11 <tool id="gama_tool" name="gama" version="1.0.0j">
8
6a1c0aabe956 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 67d85c013c62c16392b4796af86836b1334f2eef-dirty
siwaa
parents: 3
diff changeset
12
12
614bed83ba5d planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 11
diff changeset
13 (ajout de traces dans TTT.txt)
614bed83ba5d planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 11
diff changeset
14
11
8623205348e5 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 67d85c013c62c16392b4796af86836b1334f2eef-dirty
siwaa
parents: 10
diff changeset
15 - /bin/bash cmd_gama_headless.sh > run_server.txt & sleep 20 && /bin/bash cmd_python_client.sh $nb_preys_init $nb_predators_init $nb_more_steps > run_client.txt;
8623205348e5 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 67d85c013c62c16392b4796af86836b1334f2eef-dirty
siwaa
parents: 10
diff changeset
16 + /bin/bash cmd_gama_headless.sh > run_server.txt & date > TTT.txt && sleep 300 && echo "fin sleep" >> TTT.txt && date >> TTT.txt && /bin/bash cmd_python_client.sh $nb_preys_init $nb_predators_init $nb_more_steps > run_client.txt;
9
39b499a105c9 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 67d85c013c62c16392b4796af86836b1334f2eef-dirty
siwaa
parents: 8
diff changeset
17
12
614bed83ba5d planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 11
diff changeset
18 #------------------------------------------------------------------------------
614bed83ba5d planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 11
diff changeset
19 # ESSAIS Lundi 10 juin
9
39b499a105c9 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 67d85c013c62c16392b4796af86836b1334f2eef-dirty
siwaa
parents: 8
diff changeset
20 #------------------------------------------------------------------------------
39b499a105c9 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 67d85c013c62c16392b4796af86836b1334f2eef-dirty
siwaa
parents: 8
diff changeset
21
12
614bed83ba5d planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 11
diff changeset
22 gama.def:
614bed83ba5d planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 11
diff changeset
23 + chmod -R 777 /opt
614bed83ba5d planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 11
diff changeset
24
19
855883e4a317 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 18
diff changeset
25 <tool id="gama_tool" name="gama" version="1.0.0p">
14
e7772bdae78d planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 13
diff changeset
26
e7772bdae78d planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 13
diff changeset
27 registry.forgemia.inra.fr/nathalie.rousse/use/gama:3fd4fb4b90db353af9bac01b99ee3b63220274c3
e7772bdae78d planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 13
diff changeset
28
20
13a692e5a445 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 19
diff changeset
29 /bin/bash cmd_gama_headless.sh > run_server.txt & date > TTT.txt && sleep 600 && echo "fin sleep" >> TTT.txt && date >> TTT.txt && /bin/bash cmd_python_client.sh $nb_preys_init $nb_predators_init $nb_more_steps > run_client.txt;
17
5a94c8c7c8cc planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 16
diff changeset
30
20
13a692e5a445 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 19
diff changeset
31 chmod -R 777 gama-platform; A SUPPRIMER !!!
17
5a94c8c7c8cc planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 16
diff changeset
32
5a94c8c7c8cc planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 16
diff changeset
33 vim MY_gama-headless.sh :
19
855883e4a317 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 18
diff changeset
34 MY_JAVA_DIR=./_java ...
18
1437cd0df25b planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 17
diff changeset
35 if ! java -cp "$( dirname $( realpath "${BASH_SOURCE[0]}" ) )"/../plugins/org.eclipse.equinox.launcher*.jar -Xms512m $memory -Djava.io.tmpdir=$MY_TEMP_DIR -Djava.util.prefs.systemRoot=${MY_JAVA_DIR} -Djava.util.prefs.userRoot=${MY_JAVA_USER_PREFS_DIR} -Djava.awt.headless=true org.eclipse.core.launcher.Main -configuration "$( dirname $( realpath "${BASH_SOURCE[0]}" ) )"/configuration -application msi.gama.headless.product -data $passWork "$@"; then
17
5a94c8c7c8cc planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 16
diff changeset
36
19
855883e4a317 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 18
diff changeset
37
20
13a692e5a445 planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 19
diff changeset
38 cmd_python_client.sh:
21
1a7041dae86a planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 20
diff changeset
39 ps -axl
17
5a94c8c7c8cc planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 16
diff changeset
40
5a94c8c7c8cc planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 16
diff changeset
41 #------------------------------------------------------------------------------
13
13296d4a29cf planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 12
diff changeset
42
13296d4a29cf planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 12
diff changeset
43 Singularity> echo $JAVA_HOME
13296d4a29cf planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 12
diff changeset
44 /opt/openjdk-17
13296d4a29cf planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 12
diff changeset
45 Singularity> which java
13296d4a29cf planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 12
diff changeset
46 /opt/openjdk-17/bin/java
13296d4a29cf planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 12
diff changeset
47 Singularity> java -version
13296d4a29cf planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 12
diff changeset
48 openjdk version "17-ea" 2021-09-14
13296d4a29cf planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 12
diff changeset
49 OpenJDK Runtime Environment (build 17-ea+14)
13296d4a29cf planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 12
diff changeset
50 OpenJDK 64-Bit Server VM (build 17-ea+14, mixed mode, sharing)
13296d4a29cf planemo upload for repository https://forgemia.inra.fr/nathalie.rousse/use/-/tree/gama/GAMA/galaxy-tools commit 927c1d94ea613d36a1b4b8d048ba21ad43a6f55e-dirty
siwaa
parents: 12
diff changeset
51