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Wiki source code of DEMO - Working with FLASH data

Version 30.1 by cpassow on 2022-04-06 16:53
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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.
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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]
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7 {{expand title="TEST - How to login JupyterHub"}}
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10 {{view-file att--filename="tmp.mp4" height="250"/}}
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17 ----
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19 === TODO ===
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21 (% class="task-list" %)
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24 Short descriptions including Links:   → as Text\\
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31 GPFS
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35 Access rights
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39 Gamma Portal
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43 Maxwell
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47 JupyterHub
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51 conda ?
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55 explain install from channel instead of fixed environment, but can use environment file from example repository
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57 )))
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73 channel  (where to host?)
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77 environment file (repository with examples)
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79 )))
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88 Documentation
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95 here VS repository VS sphinx
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106 Binder
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113 examples with Stefan
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124 Screencast
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131 login in jupyter hub
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135 login maxwell display
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139 use slix
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143 use hdfview plugin in jupterLab
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147 create conda env with flashh5
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157 ----
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159 ==== under review ====
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163 {{code language="bash"}}
164 conda create -n flashh5 python=3.10 # 3.10 not necessary, but would prefer 3.8 or higher
165 source activate flashh5
166 conda install ipython numpy pandas #TODO: fix dependcies
167 conda install -c https://www.desy.de/~cpassow/condarepo/ flashh5
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169 ## on jhub
170 conda install ipykernel
171 python -m ipykernel install --user --name flashh5 --display-name "flashh5"
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174 ## to remove on jhub
175 ## delete from: /home/$USER/.local/share/jupyter/kernels/
176 {{/code}}
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180 {{code language="py" title="moved to repository?"}}
181 class RunDirectory:
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183 def get_run_table(): # more or less information? RunComment | Number of Files | start & stop time ?
184 ...
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186 def get_run(daq, run_number): # daq is not needed!
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188 ...
189
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191 class Run: # constructor optional without RunDirectory or use there self.path
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193 def get_files():
194 ...
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196 def get_channels(): # of file #1
197 ...
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199 def get_start_time(): # better as attribute?
200 ...
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202 def get_stop_time(): # which? | better as attribute?
203 ...
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205 def to_df(daq_map): # to_df(daq_map, slice) slice=[0:4] -> throw Exception
206 ...
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208 def to_series(channel):
209 ...
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211 def to_array(channel):
212 ...
213 {{/code}}
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215 {{code language="py" title="ideas"}}
216 run.to_df(daq_map)
217 run.to_series(daq_adr or daq_map) # on channel only?
218 run.to_array(daq_adr) # on channel only?
219
220 ## interesting?
221 # run.to_dask(daq_map)
222 # run.to_xarray(daq_map)
223 {{/code}}
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