Wiki source code of How to start the RecoGUI
Version 3.1 by flenners on 2021-04-27 14:29
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1.1 | 1 | = {{id name="00-HowtologintoMaxwell-ShortVersion:"/}}**Short Version: ** = |
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| 3 | Terminal: | ||
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3.1 | 5 | (% class="code" %) |
| 6 | ((( | ||
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1.1 | 7 | salloc ~-~-partition=all ~-~-nodes=1 –time=06:00:00 |
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3.1 | 8 | \\ssh max-bla123 |
| 9 | \\module load anaconda | ||
| 10 | \\source activate ~~/envs/tomopy | ||
| 11 | \\spyder& | ||
| 12 | ))) | ||
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1.1 | 13 | |
| 14 | \\ | ||
| 15 | |||
| 16 | Spyder: | ||
| 17 | |||
| 18 | Open RecoGUI, | ||
| 19 | |||
| 20 | (Right click on tab: "Set console working directory") (to be removed) | ||
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| 22 | Green Arrow to start program | ||
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| 24 | \\ | ||
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| 26 | = {{id name="00-HowtologintoMaxwell-LongVersion:"/}}**Long Version: ** = | ||
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| 28 | \\ | ||
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| 30 | **Login to max-nova**: E.g. from browser [[https:~~/~~/max-nova.desy.de:3443/>>url:https://max-nova.desy.de:3443/auth/ssh||shape="rect"]] | ||
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| 32 | \\ | ||
| 33 | |||
| 34 | Click on "**Launch Session**" and "**XFCE**" Icon | ||
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| 36 | [[image:attach:image2021-4-27_13-55-52.png||height="250"]] | ||
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| 38 | \\ | ||
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| 40 | **Open a Terminal**, e.g. from the icon at the bottom of your desktop. You can also open it via right click → "Open Terminal here" directly on your desktop or from any folder. | ||
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| 42 | [[image:attach:image2021-4-27_13-58-35.png||height="250"]] | ||
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| 44 | \\ | ||
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| 46 | Now you can **allocate a node** for yourself, so you will have enough memory and power for your reconstruction. | ||
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| 48 | (% class="code" %) | ||
| 49 | ((( | ||
| 50 | salloc ~-~-partition=all ~-~-nodes=1 ~-~-time=06:00:00 | ||
| 51 | ))) | ||
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| 53 | \\ | ||
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| 55 | You will get a node for 6 hours, you can also choose longer or shorter times. | ||
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| 57 | It can take some time before you get a node, then it will tell you which node is reserved for you. (Example: max-exfl069) | ||
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| 59 | \\ | ||
| 60 | |||
| 61 | Now you can **login via ssh** on this node: | ||
| 62 | |||
| 63 | (% class="code" %) | ||
| 64 | ((( | ||
| 65 | ssh max-exfl069 | ||
| 66 | ))) | ||
| 67 | |||
| 68 | Enter your password. | ||
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| 70 | \\ | ||
| 71 | |||
| 72 | EXAMPLE: | ||
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| 74 | [[image:attach:image2021-4-27_13-52-11.png||height="125"]] | ||
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| 78 | \\ | ||
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2.1 | 80 | Now you are on a different node [[image:http://confluence.desy.de/s/de_DE/7901/4635873c8e185dc5df37b4e2487dfbef570b5e2c/_/images/icons/emoticons/smile.svg||title="(Lächeln)" border="0" class="emoticon emoticon-smile"]]. |
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1.1 | 81 | |
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3.1 | 82 | \\ |
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1.1 | 83 | |
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3.1 | 84 | You first have to **load the anaconda module:** |
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1.1 | 85 | |
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3.1 | 86 | (% class="code" %) |
| 87 | ((( | ||
| 88 | module load anaconda/3 | ||
| 89 | \\ | ||
| 90 | ))) | ||
| 91 | |||
| 92 | and **activate your virtual environment**, depending on where you installed it: | ||
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| 94 | (% class="code" %) | ||
| 95 | ((( | ||
| 96 | source activate ~~/envs/tomopy | ||
| 97 | ))) | ||
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| 99 | \\ | ||
| 100 | |||
| 101 | ~~/ takes you back to your home directory. In this case, the environment "tomopy" was installed in the home directory in the folder "envs". | ||
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| 103 | \\ | ||
| 104 | |||
| 105 | now you can **start spyder**: | ||
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| 107 | (% class="code" %) | ||
| 108 | ((( | ||
| 109 | spyder& | ||
| 110 | ))) | ||
| 111 | |||
| 112 | \\ | ||
| 113 | |||
| 114 | EXAMPLE: (virtual environment in "envs/p36" | ||
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1.1 | 116 | [[image:attach:image2021-4-27_13-53-35.png||height="71"]] |
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3.1 | 120 | You can also start another terminal e.g. if you want to look at your data / reconstructions in fiji. |
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