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Last modified by makuadm on 2026-01-07 06:21
From version 50.1
edited by makuadm
on 2026-01-07 03:06
Change comment: Task [xwiki:FLASHUSER.Offline data analysis (DAQ).DEMO - Working with FLASH data.Tasks.Task_25.WebHome] has been updated!
To version 27.1
edited by cpassow
on 2022-04-06 15:32
Change comment: There is no comment for this version

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1 -FLASHUSER.Offline data analysis (DAQ).WebHome
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1 -XWiki.makuadm
1 +XWiki.cpassow
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1 -Experimental data is recorded as HDF files[[~[link~]>>doc:FS-FLASH USER tmp.Data Acquisition and controls 1.DAQ and controls overview.Offline data analysis (DAQ).The FLASH HDF5 structure.WebHome]] on the GPFS file system[[~[link~]>>https://docs.desy.de/asap3/]]. The access rights are linked to the user's DESY account and can be managed by the PI via the GAMMA portal[[~[link~]>>url:https://gamma-portal.desy.de/||shape="rect"]]. The experimental data can be downloaded via the GAMMA portal, but it is advised to use the DESY computing infrastructure. Access point are via ssh, Maxwell-Display Server[[~[link~]>>url:https://confluence.desy.de/display/MXW/Maxwell+Cluster||shape="rect"]] or JuyterHub[[~[link~]>>url:https://confluence.desy.de/display/MXW/JupyterHub+on+Maxwell||shape="rect"]]. We recommend using the JupyterHub for data exploration and the SLURM resources for high performances computing - see FAB for easy usage of the infrastructure.
1 +test
2 2  
3 -{{info title="How to login JupyterHub"}}
4 -=== ===
3 +\\
5 5  
6 -{{view-file att--filename="tmp.mp4" height="150"/}}
7 -{{/info}}
5 +{{expand}}
8 8  
9 -{{info}}
10 -=== There are different options that help you to work with the FLASH HDF5 data in Python ===
11 11  
12 -* The currently developed option for large data sets: [[the FAB package>>url:https://hasfcpkg.desy.de/fab/fab.html||shape="rect"]] ... see below
13 -* and for smaller projects:  (% class="Object" %)[[https:~~/~~/gitlab.desy.de/christopher.passow/flash-daq-hdf>>url:https://gitlab.desy.de/christopher.passow/flash-daq-hdf||shape="rect"]]
8 +{{view-file att--filename="tmp.mp4" height="250"/}}
9 +{{/expand}}
14 14  
15 -(% class="Object" %)See also the collection of Demo data and sample scripts : [[doc:FS-FLASH USER tmp.Data Acquisition and controls 1.DAQ and controls overview.Offline data analysis (DAQ).Collection of HDF5 sample data from different beamlines.WebHome]]
16 -{{/info}}
11 +\\
17 17  
13 +\\
18 18  
19 -[[~[~[image:attach:image2023-9-29_11-1-37.png~]~]>>url:https://hasfcpkg.desy.de/fab/fab.html||shape="rect"]]
20 -
21 -{{expand title="older ideas ..."}}
22 -(% class="Object" %)(object oriented) [[https:~~/~~/gitlab.desy.de/christopher.passow/fdh-builder>>url:https://gitlab.desy.de/christopher.passow/fdh-builder.git||shape="rect"]]
23 -
24 24  ----
25 25  
26 26  === TODO ===
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27 27  
28 28  (% class="task-list" %)
29 29  (((
30 -{{task reference="/Tasks/Task_18" status="InProgress" completeDate="" createDate="2026-01-06" reporter=""}}
31 -Short descriptions including Links:   → as Text
32 -\\
21 +{{task reference="/Tasks/Task_18" status="InProgress"}}
22 +Short descriptions including Links:   → as Text\\
23 +
24 +(% class="task-list" %)
25 +(((
26 +
27 +
28 +{{task reference="/Tasks/Task_19" status="InProgress"}}
29 +GPFS
33 33  {{/task}}
31 +
32 +{{task reference="/Tasks/Task_40" status="InProgress"}}
33 +Access rights
34 +{{/task}}
35 +
36 +{{task reference="/Tasks/Task_41" status="InProgress"}}
37 +Gamma Portal
38 +{{/task}}
39 +
40 +{{task reference="/Tasks/Task_42" status="InProgress"}}
41 +Maxwell
42 +{{/task}}
43 +
44 +{{task reference="/Tasks/Task_20" status="InProgress"}}
45 +JupyterHub
46 +{{/task}}
47 +
48 +{{task reference="/Tasks/Task_21" status="InProgress"}}
49 +conda ?
50 +{{/task}}
51 +
52 +{{task reference="/Tasks/Task_36" status="InProgress"}}
53 +explain install from channel instead of fixed environment, but can use environment file from example repository
54 +{{/task}}
34 34  )))
56 +{{/task}}
57 +)))
35 35  
59 +\\
36 36  
37 37  (% class="task-list" %)
38 38  (((
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43 43  (((
44 44  
45 45  
46 -{{task reference="/Tasks/Task_23" status="InProgress" completeDate="" createDate="2026-01-06" reporter=""}}
70 +{{task reference="/Tasks/Task_23" status="InProgress"}}
47 47  channel  (where to host?)
48 48  {{/task}}
49 49  
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54 54  {{/task}}
55 55  )))
56 56  
81 +\\
57 57  
58 58  (% class="task-list" %)
59 59  (((
60 -{{task reference="/Tasks/Task_25" status="InProgress" completeDate="" createDate="2026-01-07" reporter=""}}
85 +{{task reference="/Tasks/Task_25" status="InProgress"}}
61 61  Documentation
62 -\\
87 +
88 +(% class="task-list" %)
89 +(((
90 +
91 +
92 +{{task reference="/Tasks/Task_26" status="InProgress"}}
93 +here VS repository VS sphinx
63 63  {{/task}}
64 64  )))
96 +{{/task}}
97 +)))
65 65  
99 +\\
66 66  
67 67  (% class="task-list" %)
68 68  (((
69 -{{task reference="/Tasks/Task_27" status="InProgress" completeDate="" createDate="2026-01-07" reporter=""}}
103 +{{task reference="/Tasks/Task_27" status="InProgress"}}
70 70  Binder
71 -\\
105 +
106 +(% class="task-list" %)
107 +(((
108 +
109 +
110 +{{task reference="/Tasks/Task_28" status="InProgress"}}
111 +examples with Stefan
72 72  {{/task}}
73 73  )))
114 +{{/task}}
115 +)))
74 74  
117 +\\
75 75  
76 76  (% class="task-list" %)
77 77  (((
78 -{{task reference="/Tasks/Task_29" status="InProgress" completeDate="" createDate="2026-01-07" reporter=""}}
121 +{{task reference="/Tasks/Task_29" status="InProgress"}}
79 79  Screencast
80 -\\
123 +
124 +(% class="task-list" %)
125 +(((
126 +
127 +
128 +{{task reference="/Tasks/Task_30" status="InProgress"}}
129 +login in jupyter hub
81 81  {{/task}}
131 +
132 +{{task reference="/Tasks/Task_31" status="InProgress"}}
133 +login maxwell display
134 +{{/task}}
135 +
136 +{{task reference="/Tasks/Task_32" status="InProgress"}}
137 +use slix
138 +{{/task}}
139 +
140 +{{task reference="/Tasks/Task_33" status="InProgress"}}
141 +use hdfview plugin in jupterLab
142 +{{/task}}
143 +
144 +{{task reference="/Tasks/Task_34" status="InProgress"}}
145 +create conda env with flashh5
146 +{{/task}}
82 82  )))
148 +{{/task}}
149 +)))
83 83  
151 +\\
84 84  
153 +\\
85 85  
86 86  ----
87 87  
88 88  ==== under review ====
89 89  
159 +\\
90 90  
91 91  {{code language="bash"}}
92 92  conda create -n flashh5 python=3.10 # 3.10 not necessary, but would prefer 3.8 or higher
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103 103  ## delete from: /home/$USER/.local/share/jupyter/kernels/
104 104  {{/code}}
105 105  
106 -{{code language="py" title="
107 -moved to repository?"}}
176 +\\
177 +
178 +{{code language="py" title="moved to repository?"}}
108 108  class RunDirectory:
109 109  
110 110   def get_run_table(): # more or less information? RunComment | Number of Files | start & stop time ?
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149 149  # run.to_xarray(daq_map)
150 150  {{/code}}
151 151  
152 -
153 -
154 -{{/expand}}
223 +\\
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