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Changes for page 05. Data processing

Last modified by tabermah on 2024-12-11 11:17
From version 9.1
edited by janmeyer
on 2020-11-11 12:52
Change comment: There is no comment for this version
To version 3.1
edited by ecrosas
on 2020-08-24 16:45
Change comment: There is no comment for this version

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Title
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1 -10. Data processing
1 +10. Data processing and back up
Author
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1 -XWiki.janmeyer
1 +XWiki.ecrosas
Content
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1 -\\
1 +Please visit: [[https:~~/~~/photon-science.desy.de/facilities/petra_iii/beamlines/p11_bio_imaging_and_diffraction/user_information/remote_access/index_eng.html>>url:https://photon-science.desy.de/facilities/petra_iii/beamlines/p11_bio_imaging_and_diffraction/user_information/remote_access/index_eng.html||shape="rect"]]
2 2  
3 3  **10.1. Automatic data processing**
4 4  
5 -Results of the automatic data processing are only available during the beamtime. To see the data presenter, open a Browser (Open Terminal and type:(% style="color: rgb(51,153,102);" %) firefox(%%)) and type(% style="color: rgb(51,153,102);" %) /gpfs/current/processed/index.html.
5 +Results of the automatic data processing are only available during the beamtime. To see the data presenter, open a Browser (Open Terminal and type:(% style="color: rgb(51,153,102);" %) firefox(%%)) and type(% style="color: rgb(51,153,102);" %) /gpfs/current/processed/index.html.(%%)
6 +\\**10.2. Download your data after the beamtime**
6 6  
8 + Data are available for download via the [[Gamma portal>>url:https://gamma-portal.desy.de/||shape="rect"]] as it is described in [[here>>doc:ASAP3.The Gamma Portal.WebHome||shape="rect"]].
7 7  
8 8  **10.3. Manual data processing during your beamtime**
9 9  
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16 16  * for CCP4 type in the terminal (% style="color: rgb(0,128,0);" %)ccp4i
17 17  * for phenix type in the terminal (% style="color: rgb(0,128,0);" %)phenix
18 18  
19 -**10.4. Manual data processing after your beamtime**
21 +**10. Manual data processing after your beamtime**
20 20  
21 -Manual data processing after the beamtime is only available for registered [[DESY Science Accounts>>doc:FSEC.Science Accounts.WebHome||shape="rect"]].
23 +Manual data processing is only available for registered [[DESY Science Accounts>>doc:FSEC.Science Accounts.WebHome||shape="rect"]].
22 22  
23 -//Accessing data//
25 +Accessing data
24 24  In a terminal window:
25 25  ssh (% class="Object" %)[[username@desy-ps-ext.desy.de>>mailto:username@desy-ps-ext.desy.de||shape="rect"]](%%)
26 26  ssh username@desy-ps-cpu
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28 28  Navigate to data by:
29 29  cd /asap3/petra3/gpfs/p11/2020/data/beamtimeID
30 30  (you can only access the data your Door account was related to during the data collections. if you did not participate to the beamtime but are part of the group and would like to access the data, please contact (whom? I'll try to figure this out)
31 -\\//List of software you can use is at~://
33 +\\List of software you can use is at:
32 32  (% class="Object" %)[[https:~~/~~/confluence.desy.de/display/IS/Photon+Science>>doc:IS.Photon Science.WebHome||shape="rect"]](%%)
33 -\\//You can store analysis results in scratch_cc (temporary/testing results) or processed (final results).//
34 -\\//To use crystallographic programs~://
35 +\\You can store analysis results in scratch_cc (temporary/testing results) or processed (final results).
36 +\\To use crystallographic programs:
35 35  module avail
36 36  module load xray     # sets the environment for xds and helper GUIs such as XDSAPP
37 37  module load ccp4/6.4
Confluence.Code.ConfluencePageClass[0]
Id
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1 -183172152
1 +175900828
Title
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1 -10. Data processing
1 +10. Data processing and back up
URL
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1 -https://confluence.desy.de/spaces/11/pages/183172152/10. Data processing
1 +https://confluence.desy.de/spaces/11/pages/175900828/10. Data processing and back up