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Changes for page 05. Data processing

Last modified by tabermah on 2024-12-11 11:17
From version 16.1
edited by hakanj
on 2021-03-17 07:37
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To version 14.1
edited by hakanj
on 2020-12-18 14:57
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2 2  
3 -**11.1. Automatic data processing**
3 +**10.1. Automatic data processing**
4 4  
5 5  Unless you un-check the option for the specific acquisition run, autoprocessing will be executed. For standard rotational data autoprocessing is via XDSAPP (Sparta et al. (2016) //J. Apple. Cryst.// **49**, 1085-1092) for strategy calculation we use Mosflm (Leslie //Acta D//**62** (2006) 48-57) and Spotfinder ((% style="color: rgb(0,0,0);text-decoration: none;" %)Zhang et al. (2006). (% style="text-decoration: none;text-align: left;" %)//J. Appl. Cryst.//(% style="color: rgb(0,0,0);text-decoration: none;" %) (% style="text-decoration: none;text-align: left;" %)**39**(% style="color: rgb(0,0,0);text-decoration: none;" %), 112–119)(%%) for producing the heatmap for the grid scans. The results are compiled into HTML-files to give you a convenient way of checking them. The output files are in the processed folders of the corresponding datasets.  A self refreshing index of all results is created in the beamtimes processed folder. During the beamtime you can open it from file::~/~//gpfs/current/processed/index.html in a browser. The HTML-file is also contained in your data backup.
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9 -**11.2. Manual data processing onsite**
9 +**10.3. Manual data processing onsite**
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11 -Please do not use the control computers of the beamline (haspp11user01-04) nor the haspp11eval01 for data processing (latter is now fully dedicated to autoprocessing.
11 +Open a terminal (see session 3.2) and type ssh haspp11eval01. Please do not use the control computers of the beamline (haspp11user01-04) for data processing.
12 12  
13 -Use Maxwell-cluster for data processing as described in the next chapter; on-site, you can directly ssh to username@desy-ps-cpu or use Max-display by connecting to [[https:~~/~~/max-display.desy.de:3443>>url:https://max-display.desy.de:3443||shape="rect"]] via web browser. Access to Maxwell requires a Scientific Account.
13 +Here you can launch crystallographic programs directly //e.g.//:
14 14  
15 +* for XDSAPP type in the terminal (% style="color: rgb(0,128,0);" %)xdsapp
16 +* for imosflm type in the terminal (% style="color: rgb(0,128,0);" %)imosflm
17 +* for CCP4 type in the terminal (% style="color: rgb(0,128,0);" %)ccp4i
18 +* for phenix type in the terminal (% style="color: rgb(0,128,0);" %)phenix
19 +
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17 -**11.3. Manual data processing after your beamtime or during remote session**
22 +**10.4. Manual data processing after your beamtime or during remote session**
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19 -Manual data processing after the beamtime or during a remote session is only available for registered [[DESY Scientific Accounts>>doc:FSEC.Science Accounts.WebHome||shape="rect"]].
24 +Manual data processing after the beamtime or during a remote session is only available for registered [[DESY Science Accounts>>doc:FSEC.Science Accounts.WebHome||shape="rect"]].
20 20  
21 21  //Accessing data from outside the DESY network~://
22 22  In a terminal window:
Confluence.Code.ConfluencePageClass[0]
Id
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1 -202398826
1 +188798288
URL
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1 -https://confluence.desy.de/spaces/11/pages/202398826/11. Data processing
1 +https://confluence.desy.de/spaces/11/pages/188798288/11. Data processing