doc: add module 4 about containers

docs/assets/fmriprep-bootcamp-geneva2024/day1-04-containers/images/apptainer-pull.cast

@@ -0,0 +1,296 @@
+{"version": 2, "width": 112, "height": 26, "timestamp": 1725833845, "env": {"SHELL": "/bin/bash", "TERM": "xterm-256color"}}
+[0.039412, "o", "\r\nThe default interactive shell is now zsh.\r\nTo update your account to use zsh, please run `chsh -s /bin/zsh`.\r\nFor more details, please visit https://support.apple.com/kb/HT208050.\r\n"]
+[0.039969, "o", "\u001b[?1034hbash-3.2$ "]
+[1.775373, "o", "s"]
+[1.988202, "o", "s"]
+[2.078162, "o", "h"]
+[2.214013, "o", " "]
+[2.371561, "o", "b"]
+[2.551297, "o", "a"]
+[2.739464, "o", "b"]
+[2.93338, "o", "o"]
+[3.247699, "o", "\b\u001b[K"]
+[3.382472, "o", "\b\u001b[K"]
+[3.585916, "o", "o"]
+[3.700125, "o", "b"]
+[3.901138, "o", "a"]
+[4.260441, "o", "b"]
+[4.671553, "o", "\r\n"]
+[5.065439, "o", "Last login: Mon Sep  9 00:12:10 2024 from 213.55.247.15\r\r\n ____              _           _\r\n|  _ \\            | |         | |\r\n| |_) | __ _  ___ | |__   __ _| |__\r\n|  _ < / _` |/ _ \\| '_ \\ / _` | '_ \\\r\n| |_) | (_| | (_) | |_) | (_| | |_) |\r\n|____/ \\__,_|\\___/|_.__/ \\__,_|_.__/\r\n             _             _      __ \r\n            | |           (_)    /_ |\r\n            | | ___   __ _ _ _ __ | |\r\n            | |/ _ \\ / _` | | '_ \\| |\r\n            | | (_) | (_| | | | | | |\r\n            |_|\\___/ \\__, |_|_| |_|_|\r\n                      __/ |          \r\n                      |___/  \r\n\r\n Documentation: https://doc.eresearch.unige.ch/hpc/start\r\n Forum: https://hpc-community.unige.ch/\r\n OpenOndemand: https://openondemand.baobab.hpc.unige.ch/\r\n support: https://doc.eresearch.unige.ch/hpc/start#support_-_get_help\r\n\r\n\r\n"]
+[5.536119, "o", "\u001b]0;estebano@login1:~\u0007(base) (\u001b[31mbaobab\u001b[0m)-[estebano@login1 ~]$ "]
+[7.907058, "o", "#"]
+[8.478968, "o", " "]
+[8.905728, "o", "S"]
+[9.063788, "o", "o"]
+[9.33989, "o", " "]
+[9.536212, "o", "f"]
+[9.672295, "o", "a"]
+[9.786231, "o", "r"]
+[9.94457, "o", " "]
+[10.098666, "o", "w"]
+[10.254856, "o", "e"]
+[10.695411, "o", "'"]
+[10.823351, "o", "v"]
+[10.99962, "o", "e"]
+[11.115691, "o", " "]
+[11.313844, "o", "b"]
+[11.472064, "o", "e"]
+[11.65018, "o", "e"]
+[11.698227, "o", "n"]
+[11.832473, "o", " "]
+[11.924429, "o", "e"]
+[12.146812, "o", "x"]
+[12.348996, "o", "e"]
+[12.641264, "o", "c"]
+[12.75334, "o", "u"]
+[12.865849, "o", "t"]
+[13.067735, "o", "i"]
+[13.18385, "o", "n"]
+[13.271853, "o", "g"]
+[13.454284, "o", " "]
+[14.673409, "o", "o"]
+[14.73667, "o", "n"]
+[14.871652, "o", " "]
+[15.051753, "o", "t"]
+[15.091702, "o", "h"]
+[15.207814, "o", "e"]
+[15.275069, "o", " "]
+[15.52249, "o", "l"]
+[15.704027, "o", "o"]
+[15.860506, "o", "g"]
+[15.994641, "o", "i"]
+[16.060588, "o", "n"]
+[16.222813, "o", " "]
+[16.398987, "o", "n"]
+[16.489123, "o", "o"]
+[16.719347, "o", "d"]
+[16.911701, "o", "e"]
+[17.030318, "o", ","]
+[17.14172, "o", " "]
+[17.414091, "o", "w"]
+[17.482042, "o", "h"]
+[17.636896, "o", "i"]
+[17.796383, "o", "c"]
+[17.913152, "o", "h"]
+[18.108815, "o", " "]
+[18.244894, "o", "i"]
+[18.332898, "o", "s"]
+[18.449209, "o", " "]
+[18.537147, "o", "n"]
+[18.647298, "o", "o"]
+[18.805346, "o", "t"]
+[18.919462, "o", " "]
+[19.077679, "o", "n"]
+[19.235855, "o", "i"]
+[19.347869, "o", "c"]
+[19.526306, "o", "e"]
+[19.756464, "o", "\r\n\u001b]0;estebano@login1:~\u0007(base) (\u001b[31mbaobab\u001b[0m)-[estebano@login1 ~]$ "]
+[20.807389, "o", "#"]
+[21.400088, "o", " "]
+[21.576282, "o", "L"]
+[21.870514, "o", "e"]
+[22.20481, "o", "t"]
+[22.407129, "o", "'"]
+[22.519152, "o", "s"]
+[22.677326, "o", " "]
+[23.32999, "o", "b"]
+[23.532138, "o", "e"]
+[23.600162, "o", " "]
+[23.800499, "o", "g"]
+[23.890875, "o", "o"]
+[24.097575, "o", "o"]
+[24.162759, "o", "d"]
+[24.341036, "o", " "]
+[24.931624, "o", "c"]
+[25.015621, "o", "i"]
+[25.239914, "o", "t"]
+[25.446019, "o", "i"]
+[25.714399, "o", "z"]
+[25.918488, "o", "e"]
+[26.029951, "o", "n"]
+[26.301713, "o", "s"]
+[26.503259, "o", " "]
+[26.635372, "o", "a"]
+[26.773357, "o", "n"]
+[26.907562, "o", "d"]
+[27.041749, "o", " "]
+[27.676271, "o", "r"]
+[27.806414, "o", "u"]
+[28.052659, "o", "n"]
+[28.306999, "o", " "]
+[28.751322, "o", "o"]
+[28.865808, "o", "u"]
+[28.999715, "o", "r"]
+[29.181925, "o", " "]
+[29.606373, "o", "o"]
+[29.764508, "o", "p"]
+[30.128681, "o", "r"]
+[30.507204, "o", "\b\u001b[K"]
+[30.575162, "o", "e"]
+[30.665978, "o", "r"]
+[30.821458, "o", "a"]
+[31.023655, "o", "t"]
+[31.113693, "o", "i"]
+[31.205899, "o", "o"]
+[31.271926, "o", "n"]
+[31.359993, "o", "s"]
+[31.496092, "o", " "]
+[31.588171, "o", "o"]
+[31.676272, "o", "n"]
+[31.812371, "o", " "]
+[32.244969, "o", "a"]
+[32.397038, "o", " "]
+[33.213981, "o", "c"]
+[33.388004, "o", "o"]
+[33.498129, "o", "m"]
+[33.634278, "o", "p"]
+[33.748373, "o", "u"]
+[33.814434, "o", "t"]
+[33.928677, "o", "e"]
+[34.063307, "o", " "]
+[34.19703, "o", "n"]
+[34.30904, "o", "o"]
+[34.489137, "o", "d"]
+[34.647356, "o", "e"]
+[35.366029, "o", "\r\n\u001b]0;estebano@login1:~\u0007(base) (\u001b[31mbaobab\u001b[0m)-[estebano@login1 ~]$ "]
+[36.651325, "o", "salloc --partition=shared-cpu --time=00:30:00 --cpus-per-task 12 "]
+[39.83124, "o", "\r\n"]
+[39.849363, "o", "salloc: Pending job allocation 12262749\r\nsalloc: job 12262749 queued and waiting for resources\r\n"]
+[49.610993, "o", "salloc: job 12262749 has been allocated resources\r\nsalloc: Granted job allocation 12262749\r\n"]
+[49.710957, "o", "salloc: Nodes cpu239 are ready for job\r\n"]
+[50.351898, "o", "\u001b]0;estebano@login1:~\u0007(base) (\u001b[31mbaobab\u001b[0m)-[estebano@cpu239 ~]$ "]
+[52.586309, "o", "a"]
+[52.851779, "o", "p"]
+[53.302362, "o", "p"]
+[53.846551, "o", "t"]
+[54.001046, "o", "a"]
+[54.157317, "o", "i"]
+[54.245546, "o", "n"]
+[54.383299, "o", "e"]
+[54.449021, "o", "r"]
+[54.769558, "o", " "]
+[55.279916, "o", "p"]
+[55.415002, "o", "u"]
+[55.728686, "o", "l"]
+[55.932739, "o", "l"]
+[56.067073, "o", " "]
+[56.323073, "o", "d"]
+[56.427131, "o", "o"]
+[56.585467, "o", "c"]
+[56.697359, "o", "k"]
+[56.853629, "o", "e"]
+[56.923627, "o", "r"]
+[57.259966, "o", ":"]
+[57.778515, "o", "/"]
+[57.95671, "o", "/"]
+[58.369041, "o", "o"]
+[58.431096, "o", "e"]
+[58.609485, "o", "s"]
+[58.723486, "o", "t"]
+[58.787481, "o", "e"]
+[58.991704, "o", "b"]
+[59.105786, "o", "a"]
+[59.241678, "o", "n"]
+[59.606348, "o", "/"]
+[60.389026, "o", "w"]
+[60.477228, "o", "h"]
+[60.615479, "o", "a"]
+[60.725729, "o", "l"]
+[60.861835, "o", "e"]
+[61.173942, "o", "s"]
+[61.333311, "o", "a"]
+[61.49217, "o", "y"]
+[65.63889, "o", "\r\n"]
+[66.802117, "o", "\u001b[34mINFO:   \u001b[0m Converting OCI blobs to SIF format\r\n"]
+[66.814668, "o", "\u001b[34mINFO:   \u001b[0m Starting build...\r\n"]
+[68.874187, "o", "Copying blob 43c4264eed91 [--------------------------------------] 0.0b / 3.5MiB | 0.0 b/s\r\nCopying blob 27345cf1091c [--------------------------------------] 0.0b / 2.0KiB | 0.0 b/s\r\nCopying blob 71332f306c1a [--------------------------------------] 0.0b / 338.0b | 0.0 b/s\r\nCopying blob 403d215085cf [--------------------------------------] 0.0b / 9.2MiB | 0.0 b/s\r\n"]
+[69.02405, "o", "\u001b[4A\u001b[JCopying blob 43c4264eed91 done   | \r\nCopying blob 27345cf1091c [--------------------------------------] 0.0b / 2.0KiB | 0.0 b/s\r\nCopying blob 71332f306c1a [--------------------------------------] 0.0b / 338.0b | 0.0 b/s\r\nCopying blob 403d215085cf [--------------------------------------] 0.0b / 9.2MiB | 0.0 b/s\r\n"]
+[69.174751, "o", "\u001b[4A\u001b[JCopying blob 43c4264eed91 done   | \r\nCopying blob 27345cf1091c [--------------------------------------] 0.0b / 2.0KiB | 0.0 b/s\r\nCopying blob 71332f306c1a [--------------------------------------] 0.0b / 338.0b | 0.0 b/s\r\nCopying blob 403d215085cf [--------------------------------------] 60.7KiB / 9.2MiB | 7.4 MiB/s\r\n"]
+[69.324845, "o", "\u001b[4A\u001b[JCopying blob 43c4264eed91 done   | \r\nCopying blob 27345cf1091c [--------------------------------------] 0.0b / 2.0KiB | 0.0 b/s\r\nCopying blob 71332f306c1a done   | \r\nCopying blob 403d215085cf [=>------------------------------------] 508.7KiB / 9.2MiB | 3.6 MiB/s\r\n"]
+[69.472368, "o", "\u001b[4A\u001b[JCopying blob 43c4264eed91 done   | \r\nCopying blob 27345cf1091c done   | \r\nCopying blob 71332f306c1a done   | \r\nCopying blob 403d215085cf [=========>----------------------------] 2.3MiB / 9.2MiB | 30.8 MiB/s\r\n"]
+[69.624425, "o", "\u001b[4A\u001b[JCopying blob 43c4264eed91 done   | \r\nCopying blob 27345cf1091c done   | \r\nCopying blob 71332f306c1a done   | \r\nCopying blob 403d215085cf [==========================>-----------] 6.4MiB / 9.2MiB | 49.9 MiB/s\r\n"]
+[69.664465, "o", "\u001b[4A\u001b[JCopying blob 43c4264eed91 done   | \r\nCopying blob 27345cf1091c done   | \r\nCopying blob 71332f306c1a done   | \r\nCopying blob 403d215085cf done   | \r\n\u001b[4A\u001b[JCopying blob 43c4264eed91 done   | \r\nCopying blob 27345cf1091c done   | \r\nCopying blob 71332f306c1a done   | \r\nCopying blob 403d215085cf done   | \r\n"]
+[69.670662, "o", "\u001b[4A\u001b[JCopying blob 43c4264eed91 done   | \r\nCopying blob 27345cf1091c done   | \r\nCopying blob 71332f306c1a done   | \r\nCopying blob 403d215085cf done   | \r\n"]
+[69.937068, "o", "Copying config 81bda7b424 done   | \r\n\u001b[1A\u001b[JCopying config 81bda7b424 done   | \r\n"]
+[69.946669, "o", "\u001b[1A\u001b[JCopying config 81bda7b424 done   | \r\nWriting manifest to image destination\r\n"]
+[70.201337, "o", "2024/09/09 00:18:35  info unpack layer: sha256:43c4264eed91be63b206e17d93e75256a6097070ce643c5e8f0379998b44f170\r\n"]
+[70.315911, "o", "2024/09/09 00:18:35  info unpack layer: sha256:403d215085cf6b23eeccff92cf29579b24cc9b8cba4778386558cf7449135d85\r\n"]
+[70.813708, "o", "2024/09/09 00:18:36  info unpack layer: sha256:27345cf1091cebf7f0ec9c692094a5dfd654c62c9bc6eab1bf47a75fc6009d67\r\n2024/09/09 00:18:36  info unpack layer: sha256:71332f306c1acf1318817c1bed7187f0496a80603772bb76c60587a7ff46fcc0\r\n\u001b[34mINFO:   \u001b[0m Creating SIF file...\r\n"]
+[72.045526, "o", "\u001b]0;estebano@login1:~\u0007(base) (\u001b[31mbaobab\u001b[0m)-[estebano@cpu239 ~]$ "]
+[73.490442, "o", "a"]
+[73.686775, "o", "p"]
+[74.115959, "o", "p"]
+[74.681483, "o", "t"]
+[74.855968, "o", "a"]
+[75.012617, "o", "i"]
+[75.123861, "o", "n"]
+[75.350108, "o", "e"]
+[75.418104, "o", "r"]
+[76.633649, "o", " "]
+[76.923771, "o", "r"]
+[77.013804, "o", "u"]
+[77.263653, "o", "n"]
+[77.46419, "o", " "]
+[80.495684, "o", "w"]
+[80.642519, "o", "h"]
+[81.290203, "o", "a"]
+[81.400267, "o", "l"]
+[81.676549, "o", "esay_latest.sif "]
+[86.459651, "o", "'"]
+[86.823586, "o", "h"]
+[86.915618, "o", "e"]
+[87.04991, "o", "l"]
+[87.364576, "o", "o"]
+[87.74656, "o", "\b\u001b[K"]
+[87.996324, "o", "l"]
+[88.223261, "o", "o"]
+[88.335834, "o", "w"]
+[88.691544, "o", " "]
+[89.029817, "o", "\b\u001b[K"]
+[89.164029, "o", "\b\u001b[K"]
+[89.280025, "o", " "]
+[89.984753, "o", "f"]
+[90.2324, "o", "r"]
+[90.46932, "o", "o"]
+[90.60338, "o", "m"]
+[90.896263, "o", " "]
+[91.280385, "o", "t"]
+[91.414201, "o", "h"]
+[91.528337, "o", "e"]
+[91.706322, "o", " "]
+[92.676209, "o", "c"]
+[92.719638, "o", "l"]
+[92.901737, "o", "u"]
+[93.03649, "o", "s"]
+[93.282102, "o", "t"]
+[93.418713, "o", "e"]
+[93.530333, "o", "r"]
+[94.587565, "o", "~"]
+[95.266026, "o", "\b\u001b[K"]
+[96.437246, "o", "!"]
+[97.384258, "o", "'"]
+[98.415467, "o", "\r\n"]
+[98.651798, "o", " _________________________ \r\n< hello from the cluster! >\r\n ------------------------- \r\n    \\\r\n     \\\r\n      \\\r\n                    ##         .\r\n              ## ## ##        ==\r\n           ## ## ## ## ##    ===\r\n       /\"\"\"\"\"\"\"\"\"\"\"\"\"\"\"\"\"\\___/ ===\r\n      {                       /  ===-\r\n       \\______ O           __/\r\n         \\    \\         __/\r\n          \\____\\_______/\r\n"]
+[98.687927, "o", "\u001b]0;estebano@login1:~\u0007(base) (\u001b[31mbaobab\u001b[0m)-[estebano@cpu239 ~]$ "]
+[100.868055, "o", "e"]
+[101.278386, "o", "x"]
+[101.430909, "o", "i"]
+[101.564303, "o", "t"]
+[102.091672, "o", "\r\nexit\r\n"]
+[102.098927, "o", "salloc: Relinquishing job allocation 12262749\r\n"]
+[102.102869, "o", "salloc: Job allocation 12262749 has been revoked.\r\n"]
+[102.104219, "o", "\u001b]0;estebano@login1:~\u0007(base) (\u001b[31mbaobab\u001b[0m)-[estebano@login1 ~]$ "]
+[102.552658, "o", "e"]
+[102.800914, "o", "x"]
+[102.933744, "o", "i"]
+[103.045878, "o", "t"]
+[103.326208, "o", "\r\n"]
+[103.333148, "o", "logout\r\n"]
+[103.333274, "o", "Connection to login1.baobab.hpc.unige.ch closed.\r\r\n"]
+[103.334001, "o", "bash-3.2$ "]
+[104.160715, "o", "e"]
+[104.386301, "o", "x"]
+[104.501041, "o", "i"]
+[104.610814, "o", "t"]
+[104.833874, "o", "\r\n"]
+[104.833938, "o", "exit\r\n"]