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Last modified by flenners on 2025-06-24 16:56
From version 1.1
edited by flenners
on 2021-04-27 14:20
Change comment: There is no comment for this version
To version 5.1
edited by flenners
on 2021-05-04 10:28
Change comment: There is no comment for this version

Summary

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Title
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1 -Reconstruction Guideline
1 +How to start the RecoGUI
Content
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2 2  
3 3  Terminal:
4 4  
5 -salloc ~-~-partition=all ~-~-nodes=1 –time=06:00:00
5 +(% class="code" %)
6 +(((
7 +salloc ~-~-partition=psx ~-~-nodes=1 –time=06:00:00
8 +\\ssh max-bla123
9 +\\module load anaconda
10 +\\source activate ~~/envs/tomopy
11 +\\spyder&
12 +)))
6 6  
14 +\\
15 +
16 +\\
17 +
18 +{{code linenumbers="true" collapse="true"}}
19 +salloc --partition=psx --nodes=1 –time=06:00:00
20 +
7 7  ssh max-bla123
8 8  
9 9  module load anaconda
10 10  
11 -source activate ~~/envs/tomopy
25 +source activate ~/envs/tomopy
12 12  
13 13  spyder&
28 +{{/code}}
14 14  
15 15  \\
16 16  
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48 48  
49 49  (% class="code" %)
50 50  (((
51 -salloc ~-~-partition=all ~-~-nodes=1 ~-~-time=06:00:00
66 +salloc ~-~-partition=psx ~-~-nodes=1 ~-~-time=06:00:00
52 52  )))
53 53  
54 54  \\
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74 74  
75 75  [[image:attach:image2021-4-27_13-52-11.png||height="125"]]
76 76  
92 +Hint: Please use partition=psx, if you use =all, the connection might close while you are working if someone with higher priority needs the node you are working on.
93 +
77 77  \\
78 78  
96 +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"]].
97 +
79 79  \\
80 80  
81 -Now you are on a different node 🙂️.
100 +You first have to **load the anaconda module:**
82 82  
83 -You can also start another terminal e.g. if you want to 
102 +(% class="code" %)
103 +(((
104 +module load anaconda/3
105 +\\
106 +)))
84 84  
85 -And
108 +and **activate your virtual environment**, depending on where you installed it:
86 86  
110 +(% class="code" %)
111 +(((
112 +source activate ~~/envs/tomopy
113 +)))
114 +
115 +\\
116 +
117 +~~/ takes you back to your home directory. In this case, the environment "tomopy" was installed in the home directory in the folder "envs". 
118 +
119 +\\
120 +
121 +now you can **start spyder**:
122 +
123 +(% class="code" %)
124 +(((
125 +spyder&
126 +)))
127 +
128 +\\
129 +
130 +EXAMPLE: (virtual environment in "envs/p36"
131 +
87 87  [[image:attach:image2021-4-27_13-53-35.png||height="71"]]
88 88  
89 89  \\
90 90  
91 -1. [[image:attach:image2021-4-27_13-51-12.png||thumbnail="true" height="250"]]
136 +You can also start another terminal e.g. if you want to look at your data / reconstructions in fiji.
137 +
138 +\\
139 +
140 +Hint: You can check your partition via
141 +
142 +(% class="code" %)
143 +(((
144 +my-partitions
145 +)))
146 +
147 +You should have access to psx.
148 +
149 +[[image:attach:image2021-5-4_10-28-14.png]]
150 +
151 +\\
Confluence.Code.ConfluencePageClass[0]
Id
... ... @@ -1,1 +1,1 @@
1 -204941686
1 +206806124
Title
... ... @@ -1,1 +1,1 @@
1 -Reconstruction Guideline
1 +How to start the RecoGUI
URL
... ... @@ -1,1 +1,1 @@
1 -https://confluence.desy.de/spaces/P5I/pages/204941686/Reconstruction Guideline
1 +https://confluence.desy.de/spaces/P5I/pages/206806124/How to start the RecoGUI