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Last modified by makuadm on 2026-01-07 06:21
From version 24.1
edited by cpassow
on 2022-04-05 17:25
Change comment: There is no comment for this version
To version 51.1
edited by makuadm
on 2026-01-07 06:02
Change comment: Task [xwiki:FLASHUSER.Offline data analysis (DAQ).DEMO - Working with FLASH data.Tasks.Task_24.WebHome] has been updated!

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1 +FLASHUSER.Offline data analysis (DAQ).WebHome
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1 -XWiki.cpassow
1 +XWiki.makuadm
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1 -test
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.
2 2  
3 -----
3 +{{info title="How to login JupyterHub"}}
4 +=== ===
4 4  
5 -=== TODO ===
6 +{{view-file att--filename="tmp.mp4" height="150"/}}
7 +{{/info}}
6 6  
7 -(% class="task-list" %)
8 -(((
9 -{{task reference="/Tasks/Task_18" status="InProgress"}}
10 -Short descriptions including Links:   → as Text\\
9 +{{info}}
10 +=== There are different options that help you to work with the FLASH HDF5 data in Python ===
11 11  
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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"]]
15 15  
16 -{{task reference="/Tasks/Task_19" status="InProgress"}}
17 -GPFS
18 -{{/task}}
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}}
19 19  
20 -{{task reference="/Tasks/Task_20" status="InProgress"}}
21 -JupyterHub
22 -{{/task}}
23 23  
24 -{{task reference="/Tasks/Task_21" status="InProgress"}}
25 -conda ?
26 -{{/task}}
19 +[[~[~[image:attach:image2023-9-29_11-1-37.png~]~]>>url:https://hasfcpkg.desy.de/fab/fab.html||shape="rect"]]
27 27  
28 -{{task reference="/Tasks/Task_36" status="InProgress"}}
29 -explain install from channel instead of fixed environment, but can use environment file from example repository
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 +----
25 +
26 +=== TODO ===
27 +
28 +(% class="task-list" %)
29 +(((
30 +{{task reference="/Tasks/Task_18" status="InProgress" completeDate="" createDate="2026-01-06" reporter=""}}
31 +Short descriptions including Links:   → as Text
32 +\\
30 30  {{/task}}
31 31  )))
32 -{{/task}}
33 -)))
34 34  
35 -\\
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"}}
46 +{{task reference="/Tasks/Task_23" status="InProgress" completeDate="" createDate="2026-01-06" reporter=""}}
47 47  channel  (where to host?)
48 48  {{/task}}
49 49  
50 -{{task reference="/Tasks/Task_24" status="InProgress"}}
50 +{{task reference="/Tasks/Task_24" status="InProgress" completeDate="" createDate="2026-01-07" reporter=""}}
51 51  environment file (repository with examples)
52 52  {{/task}}
53 53  )))
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54 54  {{/task}}
55 55  )))
56 56  
57 -\\
58 58  
59 59  (% class="task-list" %)
60 60  (((
61 -{{task reference="/Tasks/Task_25" status="InProgress"}}
60 +{{task reference="/Tasks/Task_25" status="InProgress" completeDate="" createDate="2026-01-07" reporter=""}}
62 62  Documentation
63 -
64 -(% class="task-list" %)
65 -(((
66 -
67 -
68 -{{task reference="/Tasks/Task_26" status="InProgress"}}
69 -here VS repository VS sphinx
62 +\\
70 70  {{/task}}
71 71  )))
72 -{{/task}}
73 -)))
74 74  
75 -\\
76 76  
77 77  (% class="task-list" %)
78 78  (((
79 -{{task reference="/Tasks/Task_27" status="InProgress"}}
69 +{{task reference="/Tasks/Task_27" status="InProgress" completeDate="" createDate="2026-01-07" reporter=""}}
80 80  Binder
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82 -(% class="task-list" %)
83 -(((
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85 -
86 -{{task reference="/Tasks/Task_28" status="InProgress"}}
87 -examples with Stefan
71 +\\
88 88  {{/task}}
89 89  )))
90 -{{/task}}
91 -)))
92 92  
93 -\\
94 94  
95 95  (% class="task-list" %)
96 96  (((
97 -{{task reference="/Tasks/Task_29" status="InProgress"}}
78 +{{task reference="/Tasks/Task_29" status="InProgress" completeDate="" createDate="2026-01-07" reporter=""}}
98 98  Screencast
99 -
100 -(% class="task-list" %)
101 -(((
102 -
103 -
104 -{{task reference="/Tasks/Task_30" status="InProgress"}}
105 -login in jupyter hub
80 +\\
106 106  {{/task}}
107 -
108 -{{task reference="/Tasks/Task_31" status="InProgress"}}
109 -login maxwell display
110 -{{/task}}
111 -
112 -{{task reference="/Tasks/Task_32" status="InProgress"}}
113 -use slix
114 -{{/task}}
115 -
116 -{{task reference="/Tasks/Task_33" status="InProgress"}}
117 -use hdfview plugin in jupterLab
118 -{{/task}}
119 -
120 -{{task reference="/Tasks/Task_34" status="InProgress"}}
121 -create conda env with flashh5
122 -{{/task}}
123 123  )))
124 -{{/task}}
125 -)))
126 126  
127 -\\
128 128  
129 -\\
130 130  
131 131  ----
132 132  
133 133  ==== under review ====
134 134  
135 -\\
136 136  
137 137  {{code language="bash"}}
138 138  conda create -n flashh5 python=3.10 # 3.10 not necessary, but would prefer 3.8 or higher
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149 149  ## delete from: /home/$USER/.local/share/jupyter/kernels/
150 150  {{/code}}
151 151  
152 -\\
153 -
154 -{{code language="py" title="moved to repository?"}}
106 +{{code language="py" title="
107 +moved to repository?"}}
155 155  class RunDirectory:
156 156  
157 157   def get_run_table(): # more or less information? RunComment | Number of Files | start & stop time ?
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162 162   ...
163 163  
164 164  
165 -class Run: # constructor optional without RunDirectory
118 +class Run: # constructor optional without RunDirectory or use there self.path
166 166  
167 167   def get_files():
168 168   ...
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196 196  # run.to_xarray(daq_map)
197 197  {{/code}}
198 198  
199 -\\
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153 +
154 +{{/expand}}
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