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Version 46.1 by ahenkel on 2021-12-12 23:53
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1 {{layout}}
2 {{layout-section ac:type="single"}}
3 {{layout-cell}}
4 [[image:attach:TapeDrive_beschriftet-tile.jpg||height="250"]]
5
6 \\
7
8 {{toc minLevel="2"/}}
9
10 \\
11
12 == {{id name="14.SerialCrystallography:CFELTapeDrive-14.1Samplecharacteristicsandpreparation"/}}**14.1 Sample characteristics and preparation** ==
13
14 suspension of microcrystals, **at least** 200 µL with 20% crystal density(more is always better), size range: 2-30 µm, **tip:** bring some mother liquor for washing, filtering, diluting etc.
15
16 Preparation:
17
18 * filter through 30 µm cell filter (green) into Eppendorf or Falcon (original!) tube
19
20 [[image:attach:20211201_095534.jpg||height="250"]]
21
22 \\
23
24 == {{id name="14.SerialCrystallography:CFELTapeDrive-14.2ConnectingsampletoElveFlow,sampleexchange"/}}**14.2 Connecting sample to ElveFlow, sample exchange
25 ** ==
26
27 After filtration, screw the ElveFlow connector to your Eppendorf or Falcon tube. Make sure that the yellow-ish line goes to the bottom of your tube. You can adjust the length by unscrewing the blue fitting on top and pushing/pulling the yellow-ish line. **Don't forget to tigthen the blue fitting afterwards!**
28
29 Be aware to which channel and nozzle line your sample is connected.
30
31 Red → Channel 1, crystal line (nozzle capillary without marks/with red marks)
32
33 Green → Channel 2, substrate line (nozzle capillary is marked in black)
34
35 [[image:attach:20211201_095033.jpg||thumbnail="true" height="250"]]
36
37 After finishing data collection, flush all lines by connecting an Eppi or syringe filled with ddH,,2,,O.
38
39 [[image:attach:20211201_095232.jpg||height="250"]][[image:attach:20211201_095205.jpg||height="250"]]
40
41 \\
42
43 == {{id name="14.SerialCrystallography:CFELTapeDrive-14.3TapeDriveoperation"/}}**14.3 TapeDrive operation
44 ** ==
45
46 The TapeDrive is controlled through kamzik. To open kamzik, start the server. A terminal will open and shortly after a small window.
47 Now start the client. Same thing, a terminal will open, shortly after a small window.
48
49 Click 'Devices' in the **client session** to open the control window.
50 [[image:attach:screen.PNG||height="250"]][[image:attach:server client.PNG||height="250"]]
51
52 ==== {{id name="14.SerialCrystallography:CFELTapeDrive-Tape"/}}**Tape** ====
53
54 * Click on the 'main tape' icon
55 * Change the velocity by typing anything from **0.3-3.0 mm/s**
56 * Common velocity is 1.0-1.5 mm/s
57 * kamzik displays the used tape in m and %. At 98% the tape will automatically stop since the rolls need to be exchanged at this point.
58 \\
59 * [[image:attach:kamzik_tape.PNG||height="400"]]
60
61 ==== {{id name="14.SerialCrystallography:CFELTapeDrive-Samplenozzle"/}}**Sample nozzle** ====
62
63 * Click an the 'nozzle' icon.
64 * (((
65 The nozzle position can be adjusted in xyz by clicking on the arrows up and down. (Double arrow = 10 steps). Step size can be varied, 1mm steps are rather big and should be used carefully.
66 The absolute position is **not calibrated** and therefore changes after each restart of kamzik.
67
68
69 (% style="color: rgb(255,0,0);" %)**!!! **(% style="color: rgb(255, 0, 0); color: rgb(0, 0, 0)" %)**During data collection make sure in which direction you are moving, do not move nozzle into beam**(% style="color: rgb(255,0,0);" %)** !!!**(%%)
70 \\Adjust the nozzle position by eye until it nearly touches the tape and roughly meets the X-ray interaction point. Then, move to the control hutch to use the on-axis microscope for fine adjustment. Move the nozzle tip to the beam position (red X) and write down the absolut nozzle position. From there move the nozzle in +x to your desired distance.Different distances combined with the tape speed result in several delay times for time-resolved experiments.
71
72 (% class="wrapped" %)
73 |=(((
74 \\
75 )))|=(((
76 direction
77 )))|=(((
78 recommended step size
79 for visual adjustment
80 )))|=(% colspan="1" %)(((
81 recommended step size
82 during data collection
83 )))
84 |(((
85 +x
86 )))|(((
87 away from X-ray interaction point
88 )))|(((
89 1.0 - 0.5 mm
90 )))|(% colspan="1" %)(((
91 0.1 - 0.2 mm
92 )))
93 |(((
94 +y
95 )))|(((
96 up
97 )))|(((
98 1.0 - 0.5 mm
99 )))|(% colspan="1" %)(((
100 0.1 - 0.2 mm
101 )))
102 |(((
103 +z
104 )))|(((
105 towards detector tower, away from tape
106 )))|(((
107 0.5 - 0.2 mm
108 )))|(% colspan="1" %)(((
109 0.1 - 0.2 mm
110 be careful with -z, tape could be pushed out of focus
111 )))
112
113 **
114 \\**
115 )))
116 * [[image:attach:kamzik_nozzle.PNG||height="400"]]
117
118 ==== {{id name="14.SerialCrystallography:CFELTapeDrive-Temperaturecontrol/Chiller"/}}**Temperature control/Chiller** ====
119
120 * The chiller circulates fluid through the gas nozzle.
121
122 \\
123
124 ==== {{id name="14.SerialCrystallography:CFELTapeDrive-Gasnozzle"/}}**Gas nozzle** ====
125
126 \\
127
128 ==== {{id name="14.SerialCrystallography:CFELTapeDrive-IRcamera"/}}**IR camera** ====
129
130 \\
131
132 Once the hutch is interlocked, set remote control to the TapeDrive laptop by opening a terminal and executing the following command:
133
134 xfreerdp +clipboard /size:1920x1080 /u:Cfelusr /v:cfeld-pcx22611
135 password: //written on control laptop (changes every 6 months)
136 //
137
138 \\
139
140 \\
141
142 == {{id name="14.SerialCrystallography:CFELTapeDrive-14.5Taperollexchange"/}}**14.5 Tape roll exchange** ==
143
144 The tape stops automatically at 98% used length, if you need to change the rolls for orther reasons, stop the tape (velocity = 0.0 mm/s).
145
146 * Remove the (almost) empty feeder roll by pulling it upwards.
147 * Cut the tape with some cm overlap to glue to the new roll. **Do not discard empty roll!**
148 * Get a new tape roll (bottom left on the cart). **Polypropylen 15 µm**
149 * Cut the first cm of the new tape roll, directly behind the black sticky part.
150 * Place new roll on roll holder and use sticky tape to attach the end of the old tape to the beginning of the new roll.
151 * Open magnetic tape stabilizer on the **left side**. //!!!BEAMSTOP!!!//
152 * Start the tape (3mm/s). Once the connetion side has arrived at the collector roll, stop the tape (0mm/s).
153 * Again, cut the tape directly behind the connection side. Replace the the old roll with the **empty **one. Old roll can be discarded.
154 * Attach new tape to the empty roll by using some sticky tape.
155 * Close tape stabilizer.
156 * Reset tape counter in kamzik by clicking "<Call>" in "Main-Tape".
157
158 **[[image:attach:20211201_094101.jpg||height="250"]][[image:attach:20211201_094111.jpg||height="250"]][[image:attach:tape reset.PNG||height="250"]]
159 **
160
161 \\
162
163 \\
164
165 === {{id name="14.SerialCrystallography:CFELTapeDrive-"/}}**
166 ** ===
167 {{/layout-cell}}
168 {{/layout-section}}
169
170 {{layout-section ac:type="single"}}
171 {{layout-cell}}
172 == {{id name="14.SerialCrystallography:CFELTapeDrive-14.7Chopper"/}}**14.7 Chopper** ==
173
174 start chopper gui from terminal:
175
176 (% class="code" %)
177 (((
178 cd /gpfs/local/shared/ChopperControl
179 )))
180
181 (% class="code" %)
182 (((
183 python chopperControl.py
184 )))
185 {{/layout-cell}}
186 {{/layout-section}}
187
188 {{layout-section ac:type="two_equal"}}
189 {{layout-cell}}
190 [[image:attach:20211212_233140.jpg||height="250"]]
191 {{/layout-cell}}
192
193 {{layout-cell}}
194 **Chopper → no Chopper**
195
196 * decrease frequency by max. 10 Hz steps\\
197 ** click arrow down 10x, "Set", arrow down 10x, "Set", ....
198 * at frequency = 10 Hz, click "Stop"
199 * set "Hole" to <none> (% style="color: rgb(255,0,0);" %)//Takes some minutes//
200
201 (% style="color: rgb(0,0,0);" %)**no Chopper → Chopper**
202
203 * (% style="color: rgb(0,0,0);" %)set "Hole" to <Inner hole (largest)> (% style="color: rgb(255,0,0);" %)//Takes some minutes//
204 * (% style="color: rgb(0,0,0);" %)increase frequency by max. 10 Hz steps
205 ** (% style="color: rgb(0,0,0);" %)click arrow up 10x, "Set", arrow up 10x, "Set", .....
206 * (% style="color: rgb(0,0,0);" %)//usually 133 Hz, results in exposure time of 3.7 ms//
207 {{/layout-cell}}
208 {{/layout-section}}
209
210 {{layout-section ac:type="single"}}
211 {{layout-cell}}
212 == {{id name="14.SerialCrystallography:CFELTapeDrive-14.8Datacollection"/}}**14.8 Data collection** ==
213
214 Once the hutch is interlocked, set remote control to the TapeDrive laptop by opening a terminal and executing the following command:
215
216 (% class="code" %)
217 (((
218 xfreerdp +clipboard /size:1920x1080 /u:Cfelusr /v:cfeld-pcx22611
219 password: written on control laptop (changes every 6 months)
220 )))
221
222 //>>usually the terminal is open, just repeat previous command with arrow up, enter and type in the password//
223
224 \\
225
226 Click "Start" icon in kamzik.
227
228 [[image:attach:kamzik_run-tile.jpg||height="400"]]
229
230 ----
231 {{/layout-cell}}
232 {{/layout-section}}
233
234 {{layout-section ac:type="two_equal"}}
235 {{layout-cell}}
236 **Check list:**
237
238 (% style="color: rgb(255,0,0);" %)//always after entering the hutch!//
239
240 * Open BS1  (//CrystalControl)//
241 * Put collimator in (//CrystalControl)//
242 * Check beamstop position = 27 000 (//Atk panel p11/motor/eh.3.09)//
243 * Open fast shutter (//CrystalControl)//
244 * Check diode voltage ~~ 0.0 (//kamzik Run/Diode voltage)//
245 * Close fast shutter (//CrystalControl)//
246
247 \\
248
249 **Set run parameters and go 🏃💥**
250
251 1. Set your desired No. of frames
252 1. Match exposure time with chopper setting
253 1. Check trigger setting and match to chopper setting
254 1. Set detector distance to 200.0 mm, confirm with //enter// and click "<Call>" button next to it.
255 1. To start the run, click "<Call>" next to //exposure time//
256
257 \\
258
259 (% style="color: rgb(153,51,102);" %)**//Current bug~://**
260
261 (% style="color: rgb(0,0,0);" %)You need to "Stop" run in kamzik manually after all images have been acquired. This moves the shield up and closes the fast shutter. Afterwards you can start a new run by clicking "<Call>".
262
263
264 (% style="color: rgb(0,0,0);" %)Check progress in terminal with:
265
266 (% class="code" %)
267 (((
268 cd /gpfs/current/raw/scan_frames
269 watch "ls -lrt <run number>/ | tail"
270 \\\\\\\\
271 )))
272 {{/layout-cell}}
273
274 {{layout-cell}}
275 (% class="wrapped relative-table" style="width: 100.0%;" %)
276 |=(((
277 Parameter
278 )))|=(((
279 explanation
280 )))|=(% colspan="1" %)(((
281 value
282 )))
283 |(((
284 Images number
285 )))|(((
286 Set number of frames you want to collect
287 )))|(% colspan="1" %)(((
288 usually 100k - 200k, but adjust according to hitrate
289
290 orientation: 10 % hitrate needs at least 100k images
291 )))
292 |(((
293 exposure
294 )))|(((
295 exposure time of Eiger
296
297 \\
298 )))|(% colspan="1" %)(((
299 chopper at 133 Hz → 3.7 ms
300
301 chopper at 66 Hz   → 7.7 ms
302
303 no chopper            → 7.7 ms
304
305 ----
306 )))
307 |(((
308 run id
309 )))|(((
310 changes automatically
311 )))|(% colspan="1" %)(((
312 \\
313 )))
314 |(% colspan="1" %)(((
315 Detector distance
316 )))|(% colspan="1" %)(((
317 current detector postion readout
318 )))|(% colspan="1" %)(((
319 \\
320 )))
321 |(% colspan="1" %)(((
322 move_detector (distance)
323 )))|(% colspan="1" %)(((
324 Set detector distance
325 )))|(% colspan="1" %)(((
326 200.0 mm   (% style="color: rgb(255,0,0);" %)confirm with //enter//, click "<Call>"
327 )))
328 |(% colspan="1" %)(((
329 Diode voltage
330 )))|(% colspan="1" %)(((
331 read out of diode
332 )))|(% colspan="1" %)(((
333 **~~ 0 !!! higher values indicate missaligned beam stop!!! 
334 Call local contact
335 **
336 )))
337 {{/layout-cell}}
338 {{/layout-section}}
339
340 {{layout-section ac:type="single"}}
341 {{layout-cell}}
342 ----
343
344 == {{id name="14.SerialCrystallography:CFELTapeDrive-14.9Troubleshooting"/}}**14.9 Troubleshooting** ==
345
346 * (((
347 ==== {{id name="14.SerialCrystallography:CFELTapeDrive-Tapestopped"/}}Tape stopped ====
348
349 * Tape roll empty?
350 * motor connected (icon green)?
351 )))
352
353 \\
354
355 * (((
356 ==== {{id name="14.SerialCrystallography:CFELTapeDrive-Nozzlemotorsarenotresponding"/}}Nozzle motors are not responding ====
357
358 * displayed in green=connected?
359 * nozzle holder colliding somewhere?
360 * motor limits reached? → position displayed in red
361 )))
362
363 \\
364
365 * (((
366 ==== {{id name="14.SerialCrystallography:CFELTapeDrive-Sampleflowisnotrespondingtohigherpressure"/}}Sample flow is not responding to higher pressure ====
367
368 * channel turned on?
369 * Sample empty?
370 * Nozzle or lines clogged? → flush with water, change nozzle
371 )))
372 {{/layout-cell}}
373 {{/layout-section}}
374 {{/layout}}