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Last modified by makuadm on 2026-01-07 06:21
From version 52.1
edited by makuadm
on 2026-01-07 06:21
Change comment: Task [xwiki:FLASHUSER.Offline data analysis (DAQ).DEMO - Working with FLASH data.Tasks.Task_31.WebHome] has been updated!
To version 23.1
edited by cpassow
on 2022-04-05 16:14
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 +=== TODO ===
8 8  
9 -{{info}}
10 -=== There are different options that help you to work with the FLASH HDF5 data in Python ===
7 +(% class="task-list" %)
8 +(((
9 +{{task reference="/Tasks/Task_18" status="InProgress"}}
10 +Short descriptions including Links:   → as Text\\
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"]]
12 +(% class="task-list" %)
13 +(((
14 +
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}}
16 +{{task reference="/Tasks/Task_19" status="InProgress"}}
17 +GPFS
18 +{{/task}}
17 17  
20 +{{task reference="/Tasks/Task_20" status="InProgress"}}
21 +JupyterHub
22 +{{/task}}
18 18  
19 -[[~[~[image:attach:image2023-9-29_11-1-37.png~]~]>>url:https://hasfcpkg.desy.de/fab/fab.html||shape="rect"]]
24 +{{task reference="/Tasks/Task_21" status="InProgress"}}
25 +conda ?
26 +{{/task}}
20 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 -----
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 -\\
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
33 33  {{/task}}
34 34  )))
32 +{{/task}}
33 +)))
35 35  
35 +\\
36 36  
37 37  (% class="task-list" %)
38 38  (((
39 -{{task reference="/Tasks/Task_22" status="InProgress" completeDate="" createDate="2026-01-07" reporter=""}}
39 +{{task reference="/Tasks/Task_22" status="InProgress"}}
40 40  distribution
41 -\\
41 +
42 +(% class="task-list" %)
43 +(((
44 +
45 +
46 +{{task reference="/Tasks/Task_23" status="InProgress"}}
47 +channel  (where to host?)
42 42  {{/task}}
49 +
50 +{{task reference="/Tasks/Task_24" status="InProgress"}}
51 +environment file (repository with examples)
52 +{{/task}}
43 43  )))
54 +{{/task}}
55 +)))
44 44  
57 +\\
45 45  
46 46  (% class="task-list" %)
47 47  (((
48 -{{task reference="/Tasks/Task_25" status="InProgress" completeDate="" createDate="2026-01-07" reporter=""}}
61 +{{task reference="/Tasks/Task_25" status="InProgress"}}
49 49  Documentation
50 -\\
63 +
64 +(% class="task-list" %)
65 +(((
66 +
67 +
68 +{{task reference="/Tasks/Task_26" status="InProgress"}}
69 +here VS repository VS sphinx
51 51  {{/task}}
52 52  )))
72 +{{/task}}
73 +)))
53 53  
75 +\\
54 54  
55 55  (% class="task-list" %)
56 56  (((
57 -{{task reference="/Tasks/Task_27" status="InProgress" completeDate="" createDate="2026-01-07" reporter=""}}
79 +{{task reference="/Tasks/Task_27" status="InProgress"}}
58 58  Binder
59 -\\
81 +
82 +(% class="task-list" %)
83 +(((
84 +
85 +
86 +{{task reference="/Tasks/Task_28" status="InProgress"}}
87 +examples with Stefan
60 60  {{/task}}
61 61  )))
90 +{{/task}}
91 +)))
62 62  
93 +\\
63 63  
64 64  (% class="task-list" %)
65 65  (((
66 -{{task reference="/Tasks/Task_29" status="InProgress" completeDate="" createDate="2026-01-07" reporter=""}}
97 +{{task reference="/Tasks/Task_29" status="InProgress"}}
67 67  Screencast
68 -\\
99 +
100 +(% class="task-list" %)
101 +(((
102 +
103 +
104 +{{task reference="/Tasks/Task_30" status="InProgress"}}
105 +login in jupyter hub
69 69  {{/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}}
70 70  )))
124 +{{/task}}
125 +)))
71 71  
127 +\\
72 72  
129 +\\
73 73  
74 74  ----
75 75  
76 76  ==== under review ====
77 77  
135 +\\
78 78  
79 79  {{code language="bash"}}
80 80  conda create -n flashh5 python=3.10 # 3.10 not necessary, but would prefer 3.8 or higher
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91 91  ## delete from: /home/$USER/.local/share/jupyter/kernels/
92 92  {{/code}}
93 93  
94 -{{code language="py" title="
95 -moved to repository?"}}
152 +\\
153 +
154 +{{code language="py" title="moved to repository?"}}
96 96  class RunDirectory:
97 97  
98 98   def get_run_table(): # more or less information? RunComment | Number of Files | start & stop time ?
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103 103   ...
104 104  
105 105  
106 -class Run: # constructor optional without RunDirectory or use there self.path
165 +class Run:
107 107  
108 108   def get_files():
109 109   ...
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137 137  # run.to_xarray(daq_map)
138 138  {{/code}}
139 139  
140 -
141 -
142 -{{/expand}}
199 +\\
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