Difference between revisions of "LHCb Software At Nikhef: Prepare for Workshop 22-24 June 2009"
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The B-Fys workshop will not take place at a high energy physics lab. For these reasons, it is recommended that people install a virtual machine on their laptops in order to be able to run LHCb software locally, without necessity of an internet connection. Whereas this is not a "standard" way of performing analysis at the moment, it might be beneficial to set this up anyway. In what follows, there are explanations on how to run either with an internet connection to nikhef, or with a local virtual machine. | The B-Fys workshop will not take place at a high energy physics lab. For these reasons, it is recommended that people install a virtual machine on their laptops in order to be able to run LHCb software locally, without necessity of an internet connection. Whereas this is not a "standard" way of performing analysis at the moment, it might be beneficial to set this up anyway. In what follows, there are explanations on how to run either with an internet connection to nikhef, or with a local virtual machine. | ||
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(NB: zsh-users should add 'setopt SH_WORD_SPLIT' to their .zshrc ) | (NB: zsh-users should add 'setopt SH_WORD_SPLIT' to their .zshrc ) | ||
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| + | == Running on a virtual machine on your very own laptop == | ||
== Running over some events on a DST or MicroDST == | == Running over some events on a DST or MicroDST == | ||
Revision as of 14:18, 17 June 2009
Introduction
The B-Fys workshop will not take place at a high energy physics lab. For these reasons, it is recommended that people install a virtual machine on their laptops in order to be able to run LHCb software locally, without necessity of an internet connection. Whereas this is not a "standard" way of performing analysis at the moment, it might be beneficial to set this up anyway. In what follows, there are explanations on how to run either with an internet connection to nikhef, or with a local virtual machine.
Running at Nikhef
Logon at Nikhef
ssh user@ribble.nikhef.nl ssh stbc-16 (on stoomboot)
Set the DaVinci environment Here we set the environment for DaVinci, but it could also another LHCb application, like Bender or Panoramix.
mkdir cmtuser cd cmtuser source /project/bfys/lhcb/sw/setup.sh # for sh, bash, ksh, zsh source /project/bfys/lhcb/sw/setup.csh # for csh, tcsh SetupProject --build-env DaVinci v23r1 # makes a DaVinci_v23r1 directory if one doesn't already exist SetupProject DaVinci v23r1 # exports environment variables to the shell
getpack -p anonymous Ex/MicroDSTExample jpalac_20090610_1
(NB: zsh-users should add 'setopt SH_WORD_SPLIT' to their .zshrc )
Running on a virtual machine on your very own laptop
Running over some events on a DST or MicroDST
After the environment has been set (either by remote login to Nikhef or CERN, or in the local CernVM on your laptop, we can start some simple analysis:
Get a nice package full of example scripts (new Bender Examples package exists too...)
cd ~/cmtuser/DaVinci_v23r1/Ex/MicroDSTExample/python python -i MicroDSTReadingExample.py --input /data/bfys/h71/Workshop/SeqDC06selBs2JpsiPhiWithMC_50.0_Kevt_NoPVReFit.dst
Plot some of the histograms made by the script
>>> massPlots[443].Draw() >>> massPlots[531].Draw() >>> massResPlots[531].Draw() >>> propTimePlots[531].Draw() >>> Ctrl-D
Introduction to Python
It is important that attendees make themselves familiar with the python programming language, at least at the level of writing simple scripts.
Extensive tutorial: Tutorial
Cheat Sheet: Cheat Sheet
Install a Virtual Machine on your laptop: CernVM
See talk by Pere Mato, slide 14: 17 March 2009
CernVM beginner's guide: CernVM beginner's guide
1) Windows
1a) Download vmware player here
Unzip and put CernVM in fixed place. For example C:\Program Files\CernVM
Start vmplayer from desktop
Open CernVM from C:\Program Files\CernVM
Open in browser: http://192.168.204.128:8004/
(your number might be different!)
Create account. For example: use lxplus username and password
Virtual organization: lhcb
Change memory allocation in vmware player
-> troubleshoot
-> change memory allocation
-> 1024 MB
1b) Start CernVM
Follow CernVM beginner's guide step by step: CernVM beginner's guide
1c) Start Exceed + SSH
Start exceed
Start ssh
Connect to vm with ssh to 192.168.204.128
(Your number might be different!)
(fink tunnel x11 connections in ssh!)
1d) Configure CernVM
(once for configuring cernvm:) back to instructions afs sudo conary update openafs=1.4.8-1-1 sudo conary update openafs-client=1.4.8-1-1 sudo conary update openafs-kernel=1.4.8-1-1 sudo /etc/init.d/afs start
1e) CernVM session on ssh
Never do: ls /opt/ !! (It could start caching all atlas software...) kinit user@CERN.CH (capitals!) cd /opt/lhcb source /opt/lhcb/LbLogin.csh SetupProject Gaudi v21r0 python $GAUDIEXAMPLESROOT/python/HistoEx.py SetupProject Bender v12r0 cd $BENDEREXAMPLEROOT/python/BenderExample/ ./Phi.py
1f) Create shared data folder on your laptop
Make folder C:\Data
Change properties of C:\Data
-> sharing
-> network sharing without wizard
V share
name: Data
V allow
Edit the 2kB VMware configuration file (in C:\Program Files\CernVM\ ) and add: sharedFolder.maxNum = "1" sharedFolder0.present = "TRUE" sharedFolder0.enabled = "TRUE" sharedFolder0.readAccess = "TRUE" sharedFolder0.writeAccess = "TRUE" sharedFolder0.hostPath = "C:\Data" sharedFolder0.guestName = "data" sharedFolder0.expiration = "session" usb.autoConnect.device1 = "" NB: after editing the configuration file, restart VMware Player
In VMware:
-> Share folders
-> o always enabled
Add the following line to /etc/fstab:
sudo emacs -nw /etc/fstab
.host:/ /mnt/hgfs vmhgfs defaults 0 0
sudo ln -s /usr/sbin/mount.vmhgfs /sbin
I edited Phi.py and put input data location: /mnt/hgfs/data/Bs2DsK_1.dst )
Data can be found here:
/afs/cern.ch/lhcb/group/calo/ecal/vol10/DATA
(or ask Niels or Vanya for a copy...)
Once everything is installed... Start CernVM
Start VMware Player (don't select 'Open', but 'Recent') Login to your CernVM with your SSH. source /opt/lhcb/LbLogin.csh SetupProject Bender v12r1 ./Phi.py root TBrowser f .q
2) MAC
I have succesfully tried using VirtualBox, from Sun Microsystems. It is free, it works. Follow more or less the instructions in [[ATLAS CernVM wiki][1]]
Download and untar CernVM 1.20 Get the one for VirtualBox from [2] Unzip and untar it. And figure out where in your file system it is. This will be the boot image "disk" for the operating system so VirtualBox will need it for booting. This must be done *before* the VirtualBox step.
Get VirtualBox http://www.virtualbox.org/wiki/Downloads Install it following instructions run it and follow https://twiki.cern.ch/twiki/bin/view/Atlas/CernVMGuideVirtualBox I went for ~1542MB memory
Name: CernVM OS Type: Linux 2.6 Base Memory: 1532 MB Video Memory: 6 MB Hard Disks IDE Primary Master: cernvm-1.2.0-x86.vmdk (Normal, 5.24 GB)
I had some problems getting it to find the disk image. I did lots of clicking around and it worked in the end. I cannot replicate the "locate the vmdk file" snapshots in the wiki exactly. Maybe I'll try again to see.
For network setup, I used NAT following these instructions
Then I followed the rest of the steps here
After starting a session, it is necessary to source the LHCb login script:
source /opt/lhcb/LbLogin.csh
(check what shell you have set) I added it to my login script. Then, to cache lots of software,
SetupProject DaVinci v23r1 (no v23r1p1 yet) SetupProject Panoramix v17r0 (no v17r1 yet)
Hubert has given me instructions on how to set the login scripts properly, so I'll try them and update this document later.
Juan