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Last modified by makuadm on 2026-01-07 06:21
From version 38.1
edited by sndueste
on 2023-09-29 11:15
Change comment: There is no comment for this version
To version 48.1
edited by makuadm
on 2026-01-07 00:43
Change comment: Task [xwiki:FLASHUSER.Offline data analysis (DAQ).DEMO - Working with FLASH data.Tasks.Task_29.WebHome] has been updated!

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1 +FLASHUSER.Offline data analysis (DAQ).WebHome
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1 -XWiki.sndueste
1 +XWiki.makuadm
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1 -Experimental data is recorded as HDF files[[~[link~]>>doc:FLASHUSER.Data Acquisition and controls.Data Access at FLASH (DAQ, gpfs,\.\.\.).Offline data analysis (DAQ).The FLASH HDF5 structure.WebHome]] on the GPFS file system[[~[link~]>>doc:ASAP3.ASAP3 Data Storage for PETRA III]]. 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 +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 +=== ===
5 5  
6 6  {{view-file att--filename="tmp.mp4" height="150"/}}
7 7  {{/info}}
8 8  
9 -\\
10 -
11 11  {{info}}
12 -=== There are different options that help you to work with the FLASH HDF5 data in Python ===
10 +=== There are different options that help you to work with the FLASH HDF5 data in Python ===
13 13  
14 -The currently developed option for large data sets: [[the FAB package>>url:https://hasfcpkg.desy.de/fab/fab.html||shape="rect"]] ... see below
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 -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 +(% 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]]
17 17  {{/info}}
18 18  
19 -\\
20 20  
21 21  [[~[~[image:attach:image2023-9-29_11-1-37.png~]~]>>url:https://hasfcpkg.desy.de/fab/fab.html||shape="rect"]]
22 22  
23 -\\
24 -
25 25  {{expand title="older ideas ..."}}
26 26  (% class="Object" %)(object oriented) [[https:~~/~~/gitlab.desy.de/christopher.passow/fdh-builder>>url:https://gitlab.desy.de/christopher.passow/fdh-builder.git||shape="rect"]]
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31 31  
32 32  (% class="task-list" %)
33 33  (((
34 -{{task reference="/Tasks/Task_18" status="InProgress"}}
35 -Short descriptions including Links:   → as Text\\
36 -
37 -(% class="task-list" %)
38 -(((
39 -
40 -
41 -{{task reference="/Tasks/Task_19" status="InProgress"}}
42 -GPFS
30 +{{task reference="/Tasks/Task_18" status="InProgress" completeDate="" createDate="2026-01-06" reporter=""}}
31 +Short descriptions including Links:   → as Text
32 +\\
43 43  {{/task}}
44 -
45 -{{task reference="/Tasks/Task_40" status="InProgress"}}
46 -Access rights
47 -{{/task}}
48 -
49 -{{task reference="/Tasks/Task_41" status="InProgress"}}
50 -Gamma Portal
51 -{{/task}}
52 -
53 -{{task reference="/Tasks/Task_42" status="InProgress"}}
54 -Maxwell
55 -{{/task}}
56 -
57 -{{task reference="/Tasks/Task_20" status="InProgress"}}
58 -JupyterHub
59 -{{/task}}
60 -
61 -{{task reference="/Tasks/Task_21" status="InProgress"}}
62 -conda ?
63 -{{/task}}
64 -
65 -{{task reference="/Tasks/Task_36" status="InProgress"}}
66 -explain install from channel instead of fixed environment, but can use environment file from example repository
67 -{{/task}}
68 68  )))
69 -{{/task}}
70 -)))
71 71  
72 -\\
73 73  
74 74  (% class="task-list" %)
75 75  (((
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80 80  (((
81 81  
82 82  
83 -{{task reference="/Tasks/Task_23" status="InProgress"}}
46 +{{task reference="/Tasks/Task_23" status="InProgress" completeDate="" createDate="2026-01-06" reporter=""}}
84 84  channel  (where to host?)
85 85  {{/task}}
86 86  
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91 91  {{/task}}
92 92  )))
93 93  
94 -\\
95 95  
96 96  (% class="task-list" %)
97 97  (((
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109 109  {{/task}}
110 110  )))
111 111  
112 -\\
113 113  
114 114  (% class="task-list" %)
115 115  (((
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127 127  {{/task}}
128 128  )))
129 129  
130 -\\
131 131  
132 132  (% class="task-list" %)
133 133  (((
134 -{{task reference="/Tasks/Task_29" status="InProgress"}}
94 +{{task reference="/Tasks/Task_29" status="InProgress" completeDate="" createDate="2026-01-07" reporter=""}}
135 135  Screencast
136 -
137 -(% class="task-list" %)
138 -(((
139 -
140 -
141 -{{task reference="/Tasks/Task_30" status="InProgress"}}
142 -login in jupyter hub
96 +\\
143 143  {{/task}}
144 -
145 -{{task reference="/Tasks/Task_31" status="InProgress"}}
146 -login maxwell display
147 -{{/task}}
148 -
149 -{{task reference="/Tasks/Task_32" status="InProgress"}}
150 -use slix
151 -{{/task}}
152 -
153 -{{task reference="/Tasks/Task_33" status="InProgress"}}
154 -use hdfview plugin in jupterLab
155 -{{/task}}
156 -
157 -{{task reference="/Tasks/Task_34" status="InProgress"}}
158 -create conda env with flashh5
159 -{{/task}}
160 160  )))
161 -{{/task}}
162 -)))
163 163  
164 -\\
165 165  
166 -\\
167 167  
168 168  ----
169 169  
170 170  ==== under review ====
171 171  
172 -\\
173 173  
174 174  {{code language="bash"}}
175 175  conda create -n flashh5 python=3.10 # 3.10 not necessary, but would prefer 3.8 or higher
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186 186  ## delete from: /home/$USER/.local/share/jupyter/kernels/
187 187  {{/code}}
188 188  
189 -\\
190 -
191 -{{code language="py" title="moved to repository?"}}
122 +{{code language="py" title="
123 +moved to repository?"}}
192 192  class RunDirectory:
193 193  
194 194   def get_run_table(): # more or less information? RunComment | Number of Files | start & stop time ?
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233 233  # run.to_xarray(daq_map)
234 234  {{/code}}
235 235  
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237 237  
238 -\\
169 +
239 239  {{/expand}}
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