~~ODT~~
====== Notes for PSI ======
===== Show free disk space =====
df -h /media/disk/
===== Rsync the files to HD =====
synchronisierung auf workstation ganz links
* grosse disk einstecken
* evtl. mit `sudo gparted` formatieren, damit wirklich alles leer ist...
* evtl. mit `dmesg` schauen, was lso ist, wenn nix passiert
*`cd ~`, damit im root-verzeichnis\
* im terminal eingeben:
rsyncdir -t 60000 --no-g --exclude-from=exclude_file.txt /sls/X02DA/data/e11126/Data10/BeamTime /media/MedionHDDrive2GO/
`-t 60000`
erhoeht die abbruchzeit, damit synchronisation nicht gestoppt wird, falls mal laenger keine daten auf Data10 geschrieben werden.
--no-g konserviert die Gruppenzugehoerigkeit, und ist seit Beamtime 2010e evtl. noetig
`--exclude-from=exclude_file.txt`
filelist, die die zu exkludierenden files enthaelt. in unserem fall meist
sin
viewrec
tif
tif_ang
cpr
fcr
rec_DMP
falls die rohdaten erwuenscht sind, dann `tif` aus dem exclude_file entfernen. `tif_ang` sind die resortierten 360grad-projektionen, die chris' skript mit hardlinks generiert. 'cpr' und 'fcr' kommen von der holotomography mir rajmund, rec_DMP entstehen, wenn mann falsche parameter bei der rekonstruktion eingibt.
/sls/X02DA/data/e11126/Data10/2009a
Verzeichnis mit den Messdaten auf File-Server (einfach herauszufinden mit `pwd`)
/media/disk/
Root-Verzeichnis der Daten auf der HD. Ohne z.B. 2009a, denn rsyncdir macht sonst `/media/disk/2009a/2009a/blabla`
am ende disk mit
eject /media/FestPlattenName
unmounten.
===== backup to archivftp.psi.ch =====
Start a Terminal and logon to the 6th node of the Cluster:
ssh e11126@x02da-cn-6
Change to the directory you need to send to the Backupserver with (for example)
cd Data3/2010a
or for example
cd Data10/2009f
Then you can generate a Textfile containing a List with Files to backup using the commands:
ls -d */tif > backupfile.txt
ls -d */rec* >> backupfile.txt
ls -d mrg/*/rec* >> backupfile.txt
ls -d mrg/*/tif* >> backupfile.txt #only if you want to backup the merged tiffs!
* 'ls -d */tif' lists all the subdirectories containing the Projections in the directory you're in and '> backupfile.txt' writes the output of this command to a textfile with the chosen name.
* The following commands look for other directories ('ls -d */rec*' looks for all instances of rec*-Directories, e.g. rec_8bit or rec_16bit) and appends them (using '>>') to the same file. The appending is important, or else you'll loose what you've entered in the previous lines!
* In the end we're also looking for Projections and Reconstructions in the 'mrg' subfolder, where we've written the merged Files using the [[widefieldscan]]-workflow.
To actually start the backup, you need to issue the following command (in the directory where you generated the backupfile):
bl-ftp2arch.sh -u e11126 -e david.haberthuer@psi.ch -b -P -f backupfile.txt
This starts the archiver-script for the Schittny-eAccount (-u), notifies David about success/failure (-e, email goes only to @psi-Addresses), performs the archival in the background (-b), asks for the archivFTP-Password (-P) and uses backupfile.txt as list of files to backup (-f).
If you want to monitor the progress, it's probably best if you run the command without the -b flag inside a [[https://www.google.ch/search?q=linux+screen|screen]]-session, so you can hangup the terminal and come back.
===== Restore backup from archivftp.psi.ch =====
Either follow [[http://sls.web.psi.ch/view.php/beamlines/ms/xtm/manuals/index.html#restore|these steps]] on the TOMCAT-website or:
* Connect to slslc05.psi.ch per SSH
* Start gFTP to have a graphical interface to the FTP-server. Start it with issuing "gftp" in the terminal.
* login as either e11126@archivftp.psi.ch or e10277@archivftp.psi.ch. The passwords are known by the Beamline-Crew or me.
* Browse to the directory which you want to restore.
* Try to transfer the data. Since archivftp.psi.ch stores everything on tape, you'll probably get an error the first time. Just retry after some minutes, then everything should work like a charm.
===== DicoClient =====
Falls jobs manuell submitted wurden und nicht mit dem RecoManager angeschaut werden koennen, dann kann auf x02da-cons-2
cd /usr/local/cluster/DiCoClient/
java -jar DiCoClient.jar
ausgefuehrt werden. Dies started den DicoClient ([[https://controls.web.psi.ch/cgi-bin/twiki/view/Main/DiCat|Distibuted Computing Client]]). Mit "lj ex a" sieht mensch alle momentan ausgefuehrten, der Rest wird mit "h" erklaert.
===== rename multiple files =====
either
rename R243b10_ R243b10_mrg R243b10_???.tif
or use workaround like below if "rename" does not work with more than 1000 files (seems to be the case over ssh/x-server...)
rename R243b10_0 R243b10_mrg0 R243b10_0???.tif
rename R243b10_1 R243b10_mrg1 R243b10_1???.tif
rename R243b10_2 R243b10_mrg2 R243b10_2???.tif
rename R243b10_3 R243b10_mrg3 R243b10_3???.tif
rename R243b10_4 R243b10_mrg4 R243b10_4???.tif
...
===== Camserver restart =====
rdesktop pc6189 -g 1250x950 -a 16
oder mit
alias | grep CCD
rausfinden, welcher PC momentan grad zustaendig ist...
===== Reset Camera =====
* Start CamWare and take any picture (snap shot or movie)
* Close CamWare
* Start Image-Pro Plus
* Start Camera Server FIFO
===== Image-Pro Plus =====
* Camera control -> Exposure, binning, etc.
* Histogram (Histogram of image, directly linked to a particular image)
* Flat: 40'000 - 50'000 counts.
* Arithmetic and logical operations -> divide image by flat -> min. 2000 - 3000 counts in new images. If not -> higher energy!!
* Enhance - Display range: Gives histogram of current image and defines display range. May be use constantly.