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Last modified by makuadm on 2026-01-07 06:21
From version 35.1
edited by sndueste
on 2023-09-28 16:54
Change comment: There is no comment for this version
To version 20.1
edited by cpassow
on 2022-04-04 15:18
Change comment: There is no comment for this version

Summary

Details

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Title
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1 -DEMO - Working with FLASH data
1 +DEMO - Documentation
Author
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1 -XWiki.sndueste
1 +XWiki.cpassow
Content
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1 -Experimental data is recorded as HDF files[link] on the GPFS file system[link]. The access rights[link to ACLs] are linked to the user's DESY account and can be managed by the PI via the GAMMA portal[link]. 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[link], Maxwell-Display Server[link] or JuyterHub[link]. We recommmend using the JupyterHub for data exploration and the SLURM resources[link] for high performances computing.
1 +(% style="list-style-type: square;" %)
2 +* Short descriptions including Links:   → as Text\\
3 +(% style="list-style-type: square;" %)
4 +** GPFS
5 +** JupyterHub
6 +** conda ?
2 2  
3 -For simplified acccess we provide a conda module flashh5[link] which can be installed in a personal conda environment[link] on the Maxwell Cluster. Example on the usage can be found here [link - repo + binder]
4 -
5 5  \\
6 6  
7 -{{expand title="How to login JupyterHub"}}
10 +(% style="list-style-type: square;" %)
11 +* Links Repository
12 +(% style="list-style-type: square;" %)
13 +** including Method Description: Readme or Sphinx ?
8 8  
9 -
10 -{{view-file att--filename="tmp.mp4" height="250"/}}
11 -{{/expand}}
12 -
13 13  \\
14 14  
15 -{{info}}
16 -=== Reference implementation (Python) ===
17 +(% style="list-style-type: square;" %)
18 +* Links to Binder
17 17  
18 -(imperative)  (% class="Object" %)[[https:~~/~~/gitlab.desy.de/christopher.passow/flash-daq-hdf>>url:https://gitlab.desy.de/christopher.passow/flash-daq-hdf||shape="rect"]]
19 -
20 -(% class="Object" %)(object oriented) [[https:~~/~~/gitlab.desy.de/christopher.passow/fdh-builder>>url:https://gitlab.desy.de/christopher.passow/fdh-builder.git||shape="rect"]]
21 -
22 22  \\
23 -{{/info}}
24 24  
25 -link to Repos and Fab
22 +(% style="list-style-type: square;" %)
23 +* Screencast
26 26  
27 27  \\
28 28  
29 29  \\
30 30  
31 -\\
29 +Questions:
32 32  
33 -{{expand title="older ideas ..."}}
34 -\\
31 +(% style="list-style-type: square;" %)
32 +* distribution\\
33 +(% style="list-style-type: square;" %)
34 +** channel
35 +** enviroment → as example for binder
35 35  
36 -----
37 -
38 -=== TODO ===
39 -
40 -(% class="task-list" %)
41 -(((
42 -{{task reference="/Tasks/Task_18" status="InProgress"}}
43 -Short descriptions including Links:   → as Text\\
44 -
45 -(% class="task-list" %)
46 -(((
47 -
48 -
49 -{{task reference="/Tasks/Task_19" status="InProgress"}}
50 -GPFS
51 -{{/task}}
52 -
53 -{{task reference="/Tasks/Task_40" status="InProgress"}}
54 -Access rights
55 -{{/task}}
56 -
57 -{{task reference="/Tasks/Task_41" status="InProgress"}}
58 -Gamma Portal
59 -{{/task}}
60 -
61 -{{task reference="/Tasks/Task_42" status="InProgress"}}
62 -Maxwell
63 -{{/task}}
64 -
65 -{{task reference="/Tasks/Task_20" status="InProgress"}}
66 -JupyterHub
67 -{{/task}}
68 -
69 -{{task reference="/Tasks/Task_21" status="InProgress"}}
70 -conda ?
71 -{{/task}}
72 -
73 -{{task reference="/Tasks/Task_36" status="InProgress"}}
74 -explain install from channel instead of fixed environment, but can use environment file from example repository
75 -{{/task}}
76 -)))
77 -{{/task}}
78 -)))
79 -
80 80  \\
81 81  
82 -(% class="task-list" %)
83 -(((
84 -{{task reference="/Tasks/Task_22" status="InProgress"}}
85 -distribution
86 -
87 -(% class="task-list" %)
88 -(((
89 -
90 -
91 -{{task reference="/Tasks/Task_23" status="InProgress"}}
92 -channel  (where to host?)
93 -{{/task}}
94 -
95 -{{task reference="/Tasks/Task_24" status="InProgress"}}
96 -environment file (repository with examples)
97 -{{/task}}
98 -)))
99 -{{/task}}
100 -)))
101 -
102 -\\
103 -
104 -(% class="task-list" %)
105 -(((
106 -{{task reference="/Tasks/Task_25" status="InProgress"}}
107 -Documentation
108 -
109 -(% class="task-list" %)
110 -(((
111 -
112 -
113 -{{task reference="/Tasks/Task_26" status="InProgress"}}
114 -here VS repository VS sphinx
115 -{{/task}}
116 -)))
117 -{{/task}}
118 -)))
119 -
120 -\\
121 -
122 -(% class="task-list" %)
123 -(((
124 -{{task reference="/Tasks/Task_27" status="InProgress"}}
125 -Binder
126 -
127 -(% class="task-list" %)
128 -(((
129 -
130 -
131 -{{task reference="/Tasks/Task_28" status="InProgress"}}
132 -examples with Stefan
133 -{{/task}}
134 -)))
135 -{{/task}}
136 -)))
137 -
138 -\\
139 -
140 -(% class="task-list" %)
141 -(((
142 -{{task reference="/Tasks/Task_29" status="InProgress"}}
143 -Screencast
144 -
145 -(% class="task-list" %)
146 -(((
147 -
148 -
149 -{{task reference="/Tasks/Task_30" status="InProgress"}}
150 -login in jupyter hub
151 -{{/task}}
152 -
153 -{{task reference="/Tasks/Task_31" status="InProgress"}}
154 -login maxwell display
155 -{{/task}}
156 -
157 -{{task reference="/Tasks/Task_32" status="InProgress"}}
158 -use slix
159 -{{/task}}
160 -
161 -{{task reference="/Tasks/Task_33" status="InProgress"}}
162 -use hdfview plugin in jupterLab
163 -{{/task}}
164 -
165 -{{task reference="/Tasks/Task_34" status="InProgress"}}
166 -create conda env with flashh5
167 -{{/task}}
168 -)))
169 -{{/task}}
170 -)))
171 -
172 -\\
173 -
174 -\\
175 -
176 -----
177 -
178 -==== under review ====
179 -
180 -\\
181 -
182 182  {{code language="bash"}}
183 183  conda create -n flashh5 python=3.10 # 3.10 not necessary, but would prefer 3.8 or higher
184 184  source activate flashh5
... ... @@ -199,15 +199,14 @@
199 199  {{code language="py" title="moved to repository?"}}
200 200  class RunDirectory:
201 201  
202 - def get_run_table(): # more or less information? RunComment | Number of Files | start & stop time ?
59 + def get_run_table(): # more or less information? RunComment | Number of Files
203 203   ...
204 204  
205 - def get_run(daq, run_number): # daq is not needed!
206 -
62 + def get_run(daq, run_number): # daq is not needed
207 207   ...
208 208  
209 209  
210 -class Run: # constructor optional without RunDirectory or use there self.path
66 +class Run:
211 211  
212 212   def get_files():
213 213   ...
... ... @@ -220,6 +220,9 @@
220 220  
221 221   def get_stop_time(): # which? | better as attribute?
222 222   ...
79 +
80 +### for following methods to restrict number of files or separate method
81 +### e.g. create_df(files)
223 223  
224 224   def to_df(daq_map): # to_df(daq_map, slice) slice=[0:4] -> throw Exception
225 225   ...
... ... @@ -236,12 +236,9 @@
236 236  run.to_series(daq_adr or daq_map) # on channel only?
237 237  run.to_array(daq_adr) # on channel only?
238 238  
239 -## interesting?
98 +## is this interesting?
240 240  # run.to_dask(daq_map)
241 241  # run.to_xarray(daq_map)
242 242  {{/code}}
243 243  
244 244  \\
245 -
246 -\\
247 -{{/expand}}