Differences

This shows you the differences between two versions of the page.

--- other:newppl:starting [2018/07/16 09:13]
jypeter [Miscellaneous information] Added more useful links
+++ other:newppl:starting [2020/08/20 15:14]
jypeter [Accessing the Linux servers from your LSCE deskop]
@@ Line 8: / Line 8: @@
 A few useful links that have nothing to do with science and software resources!
+  * [[other:newppl:pub_transport|LSCE-related public transport]]
   * [[other:newppl:riealgo|Adding money online to your restaurant account]]
   * [[https://intranet.lsce.ipsl.fr/Phocea/Page/index.php?id=97|Survival kit and other information for CDD and interns]] (LSCE intranet)
   * [[http://internationaloffice.ceasaclay.com/?lang=en|CEA Saclay International Office]] //Our multilingual staff is readily available to assist you through immigration procedures and to help you settle in France//
   * [[https://www.universite-paris-saclay.fr/en/e-international-welcome-office|e-International Welcome Office]] //Paris-Saclay university help to prepare for your arrival in France and help you settle down in the best conditions//
+  * [[https://logement.campus-paris-saclay.fr/| Trouver un logement dans une résidence universitaire]] (in French... //Finding a room in a student dorm//)
   * [[https://www.science-accueil.org/en/|Science Accueil]]
+  * {{:other:newppl:uvsq-guide-du-personnel-nov2019.pdf|Guide du Personnel UVSQ}}
+===== Phone directory, and map of the building =====
+==== Using existing information ====
+  * [[https://intranet.lsce.ipsl.fr/en/Phocea/Membres/Annuaire/index.php|Phone directory]] (intranet)
+    * Dial **2** + ''NNNN'' (last 4 digits) to call somebody at LSCE (or CEA Saclay) from LSCE
+  * [[https://intranet.lsce.ipsl.fr/PlanLabo/index.html|701 and 714 map]] (intranet)
+==== Updating the directory/map information ====
+<WRAP center round important 60%>
+It's very important that you update your phone/office information when you arrive at LSCE, so that other people can find you using the tools above!
+</WRAP>
+=== Finding your phone number ===
+Use the following sequence of keys on the //Mitel// phone in your office:
+  - Select **MENU** (use the downward arrow)
+  - Select **PARAMETRES** (use the downward arrow)
+  - Select **GENERAL** (use the downward arrow)
+  - Select **MON NUMERO**
+    * This will display your **2** + ''NNNN'' phone number
+    * You can be called from outside with ''01 69 08 NN NN''
+=== Updating your entry in the directory ===
+  - Find your name in the [[https://intranet.lsce.ipsl.fr/en/Phocea/Membres/Annuaire/index.php|phone directory]]
+  - Click on **Modifier mes coordonnées** (in blue on the right side)
+  - Click on **Informations dans l'annuaire** and update the different fields
+  - Click on **Envoyez votre demande**
 ===== The LSCE mailing lists =====
@@ Line 51: / Line 86: @@
 ===== Accessing the LSCE intranet =====
-Web site: https://intranet.lsce.ipsl.fr/
+<WRAP center round tip 60%>
+If you try to access the intranet **from outside the LSCE** network (including //eduroam//), your browser will open a ''login''/''password'' popup window. Use your LSCE login (not your email address!) and password
+</WRAP>
+Intranet web site: https://intranet.lsce.ipsl.fr/
 There is a lot of information available on the LSCE intranet, but you can only access it from a computer connected to the LSCE network
@@ Line 86: / Line 126: @@
 Everybody working for CLIM & ESTIMR gets a computer that can be connected to the LSCE network. Please take the time to read the instructions below, that may help make your life easier
-==== Windows 7 computer ====
+==== Windows computer ====
-Read the notes (and follow the instructions) in [[other:index#windows_7_notes|Windows 7 notes]], especially the [[other:win7config|Basic Windows 7 Configuration]] section
+Read the [[other:index#windows_10_notes|Windows 10 notes]], especially the //Configuring Windows 10// section
+Note: there are also some [[other:index#windows_7_notes|Windows 7 notes]], but you are supposed to use Windows 10 since January 2020!
 === Getting administrator's rights ===
@@ Line 94: / Line 136: @@
 <note warning>\\ Make sure you know what you are doing and that you are not executing a virus asking you suspicious access rights!\\ </note>
-If an application requests administrator's rights to install something or make changes to the computer, **and you are sure it's not a virus**, use the ''.\adminuser'' account and the adminuser password you got when your computer was configured, or ask the [[.:starting?do=edit#getting_help_from_the_lsce_system_administrators|system administrators]].
+If an application requests administrator's rights to install something or make changes to the computer, **and you are sure it's not a virus**, use the ''.\admin'' local account and the ''admin'' password you received when your computer was configured, or ask the [[.:starting?do=edit#getting_help_from_the_lsce_system_administrators|system administrators]].
 ==== Linux computer ====
@@ Line 122: / Line 164: @@
 ===== Accessing the Linux servers from your LSCE deskop =====
-==== Linux or mac desktop ====
+[[other:ssh|Use ssh to connect to the servers]]
-Just open a terminal and [[#which_linux_servers_should_you_use|use ssh to connect to the appropriate server]]
+If you are really in a hurry, go directly to the [[other:ssh#useful_aliases|Useful aliases]] section, but it is important that you read the full page at least once!
-==== Windows desktop ====
-There should be an //Obelix// shortcut on the left side of your desktop. Double-click on it in order to open a window (e.g. with graphics) environment on one of the obelix servers. Each terminal you will open in this environment will run on the same obelix server. Use ssh to [[#which_linux_servers_should_you_use|connect another server]]
-If there is not yet an //Obelix// shortcut, use the [[other:win7apps#setup|VcXsrv XLaunch]] program to create it
+===== Which Linux servers should you use? =====
-Note: you can also use [[other:win7apps#putty|Putty]] if you just need text windows, or [[other:win7apps#vcxsrv_windows_x_server|VcXsrv]] or [[other:win7apps#putty|Putty]]+[[other:win7apps#cygwin-x|Cygwin-X]] if you also need graphics
+==== Working directly on your desktop ====
-===== Which Linux servers should you use? =====
+Always remember that **your local LSCE desktop can [[#accessing_remote_disks|access remote disks on the LSCE servers]]**.
-There are lots of things you can do directly on your **local** Win7 or Linux desktop (displaying pdf, images, using a text editor, ...), rather than on the remote servers. Never forget that **your local desktop has access to the remote disks on the Linux servers**.
+There are lots of things you can do directly on your **local** Windows 10 or Linux desktop (displaying pdf, images, using a text editor, ...), rather than on the remote servers. For example, if a script running on the servers generates a pdf file, it is more efficient to open this pdf file using ''Acrobat''/''evince'' on your desktop, than by using ''evince'' on the server.
-Otherwise, **use the appropriate Linux servers**. The //load balancing// system will send you to the server that has currently the smallest load
+==== Available servers ====
-  * obelixN (''ssh obelix'', or ''ssh obelix.lb''): never forget that you are sharing these servers with other users! Do not use too much CPU and memory for a long time. Heavy computation should be done on the obelix cluster
+  * **The LSCE interactive servers**: ''obelix//NN//''. Use ''ssh obelix'' to access these servers, and the //load balancing// system will send you to the server that has currently the smallest load.\\ Never forget that you are sharing these servers with other users! Do not use too much CPU and/or memory for a long time. Heavy computation should be done on the obelix cluster
-  * [[https://intranet.lsce.ipsl.fr/informatique/en/calcul/batch.php|the batch system]] (aka //obelix cluster//) for really heavy duty programs
+    * <code>$ ssh obelix
-  * in some cases, you may need an account to use the [[http://mesocentre.ipsl.fr/|IPSL/ESPRI clusters]] (aka //ciclad// and //climserv//), especially if you need to use data that is already available/mirrored there, rather than copying the data to LSCE
+Last login: Mon Jun  3 08:49:53 2019 from somewhere
-  * asterixN: some people may mention these servers, but they don't exist any more!
+# You can use one of the following commands if you want to know on which obelix you are
+$ echo $HOST
+obelix5
+$ hostname
+obelix5</code>
+  * **[[https://intranet.lsce.ipsl.fr/informatique/en/calcul/batch.php|The LSCE cluster]]** (aka the //batch system//). Use this for really heavy duty programs
+  * **[[http://mesocentre.ipsl.fr/|The ciclad and climserv servers]]**. In some cases, you may need an account to use the [[http://mesocentre.ipsl.fr/|IPSL/ESPRI clusters]], especially if you need to use data files that are already available/mirrored there (e.g. **''CMIPn'' data**), rather than copying the data to LSCE
+    * [[http://mesocentre.ipsl.fr/account-opening/|Requesting a new account]]
+  * **The ''asterix//N//'' servers**: some wise LSCE elders may mention these servers, but they don't exist any more!
 ==== Which shell are you using? ====
@@ Line 165: / Line 214: @@
 If the Linux server you are working on seems slow, or if you want to get an idea of the resources **you** are using, you should use the ''top'' command
-<code>jypeter@obelix4 - ...jypeter - 46 >top
+<code>  >hostname
+obelix3
+ >top
 top - 17:48:51 up 8 days, 23:43, 29 users,  load average: 1.22, 1.38, 1.98
 Tasks: 324 total,   2 running, 320 sleeping,   2 stopped,   0 zombie
@@ Line 173: / Line 225: @@
   PID USER      PR  NI  VIRT  RES  SHR S %CPU %MEM    TIME+  COMMAND
- mpeau     20   0  302m 4336 2272 R 100.0  0.0   7033:08 emacs
+ john      20   0  302m 4336 2272 R 100.0  0.0   7033:08 emacs
- mpeau     20   0  110m 2008 1228 S  0.7  0.0   0:00.13 tcsh
+ john      20   0  110m 2008 1228 S  0.7  0.0   0:00.13 tcsh
- dzhu      20   0 1635m  20m 3880 S  0.3  0.1   0:44.90 ipython
+ jane      20   0 1635m  20m 3880 S  0.3  0.1   0:44.90 ipython
 root      20   0 21448 1108  892 S  0.0  0.0   0:01.61 init
     [...]
@@ Line 185: / Line 237: @@
 <code>      PID USER      PR  NI  VIRT  RES  SHR S %CPU %MEM    TIME+  COMMAND
- jchang    20   0 8488m 8.1g 7912 R 99.6 25.9   1:41.38 idl
+ bob       20   0 8488m 8.1g 7912 R 99.6 25.9   1:41.38 idl
- pvait     20   0  232m  70m 2632 S  0.0  0.2   0:01.36 R
+ john      20   0  232m  70m 2632 S  0.0  0.2   0:01.36 R
- dzhu      20   0 1635m  20m 3880 S  0.0  0.1   0:44.87 ipython
+ jane      20   0 1635m  20m 3880 S  0.0  0.1   0:44.87 ipython
- astege    20   0  954m 9292 2664 S  0.0  0.0   0:40.67 gedit
+ bob       20   0  954m 9292 2664 S  0.0  0.0   0:40.67 gedit
 nslcd     20   0  442m 6056 2208 S  0.0  0.0   2:13.98 nslcd
-twang     20   0  128m 5068 2076 S  0.0  0.0   0:00.05 gconfd-2
+ john      20   0  302m 4336 2272 R 99.9  0.0   7024:13 emacs
- mpeau     20   0  302m 4336 2272 R 99.9  0.0   7024:13 emacs
     [...]</code>
@@ Line 205: / Line 256: @@
 <note warning>
   * It is very important to use the correct directories and make it easy for your advisor to find things after you have left
-    * **Put the source codes, scripts and papers you are writing on a backed up disk**
+    * <wrap em>**Put the source codes, scripts and papers you are writing on a backed up disk**</wrap>
-    * Put temporary files on a scratch disk
+      * The <wrap em>backed up disk at LSCE</wrap> is [[#the_home_directory|home directory]]\\ You should have a few Gb available on //home//\\ Use the ''quota -s'' command to find out the exact amount
-    * Do NOT put (big) data files on a backed up disk
+    * Put **temporary files** on a scratch disk (''scratch01'' at LSCE)
+    * Do **NOT** put (big) data files on a backed up disk
   *  Do not forget to clean your directories before you leave (ask your advisor what should be kept or cleaned)
@@ Line 214: / Line 266: @@
 ==== Accessing remote disks ====
-It is possible to access directly all the disks on the LSCE servers from your local Linux or Windows desktop
+It is possible to access directly all the disks on the LSCE servers from your //local// Linux or Windows computer\\ (//local// = a computer on the LSCE ethernet/wired network)
   * Example path on the LSCE Linux server: ''/home/scratch01/your_lsce_login''
-  * Accessing the same path from a local desktop:
+  * Accessing the path above from a //local// computer:
-    * Linux desktop: ''/home/scratch01/your_lsce_login''
+    * Linux computer: ''/home/scratch01/your_lsce_login''
-    * Windows desktop: ''\\dfshost\dfs\scratch01\your_lsce_login''\\ {{ :other:newppl:dfs_on_win.png?nolink |}}
+    * Windows computer: ''\\dfshost\dfs\scratch01\your_lsce_login''\\ {{ :other:newppl:dfs_on_win.png?nolink |}}
 ==== The home directory ====
@@ Line 233: / Line 285: @@
       * bash shell users: ''.profile'' and ''.bashrc''
       * emacs text editor: ''.emacs''
+    * You can go to your home directory by typing ''cd'' (no arguments),\\ and to the home directory of somebody else with ''cd ~login_name''
+      * At LSCE, you can't read the content of somebody else's //home// directory by default
   * **Backup of the home directory on the LSCE servers**: YES! Every night
-    * More details on the [[https://intranet.lsce.ipsl.fr/informatique/en/nsr/index.php|backup system]] page
+    * More details on the [[https://intranet.lsce.ipsl.fr/informatique/en/nsr/index.php|LSCE backup system]] page
-    * Put the most important sources/scripts/data/papers in this directory
+    * <wrap em>Put the most important sources/scripts/data/papers in this directory</wrap>
-    * Do not put temporary files, or big data files that are available somewhere else in this directory!
+    * **Do not** use the //home// directory to store:
-    * Your home directory will also be archived when your account is closed
+      * temporary files (use ''scratch01'')
+      * big (or many) data files (use ''scratch01'' or a project specific disk)
+    * Your home directory will be archived when your account is closed, so that you or your advisor can access it later, if required
   * **Backup of the TGCC home directory**: YES!
@@ Line 246: / Line 302: @@
  > quota -s
-Disk quotas for user jypeter (uid 6369):
+Disk quotas for user johndoe (uid 6369):
      Filesystem  blocks   quota   limit   grace   files   quota   limit   grace
 prolix3:/users/   4658M   4883M   4981M           23503       0       0</code>
 ==== The scratch directory ====
+<note warning>Do not put anything in the scratch directory that you can't recreate with a program, or copy/download from somewhere else!</note>
   * **Location**: ''/home/scratch01/your_lsce_login''
@@ Line 263: / Line 321: @@
 ==== Project specific directories ====
+<note warning>The data on these disks is <wrap em>probably not backed up</wrap>... You are not protected against file deletion by mistake, or a disk crash (a major disk crash is not likely, but can happen)
+\\ You should <wrap em>store your source codes, scripts, notebooks, manuscripts, reports, figures, on a backed up directory</wrap>, and only store on the project disks data downloaded from outside, or that you can regenerate with the backed up scripts</note>
   * **Location**: ''/home/some_project_name/your_lsce_login''
     * Ask your advisor if you should use a specific project directory and the technical details about it
-    * Use this directory for storing the (big) data files that you can't store safely in the //scratch// directory, and should not store in the //scratch// directory
+    * Use this directory for storing the (big) data files that you can't store safely in the //scratch// directory, and should not store in the //home// directory
   * **Backup**: ask your advisor
@@ Line 276: / Line 339: @@
 Your Linux environment may sometimes stop working correctly because you have exceeded the allowed quota on your disks (check your quotas with ''quota -s''). You can use the following command to get the size of all the directories and files in the current directory, sorted by size: ''du -sh * | sort -rh''
-<code>jypeter@obelix4 - ...jypeter - 46 >cd /home/scratch01/jypeter
+<code> >cd /home/scratch01/johndoe
-/home/scratch01/jypeter
+/home/scratch01/johndoe
-jypeter@obelix4 - ...jypeter - 47 >du -sh * | sort -rh
+ >du -sh * | sort -rh
 M     GLAC1DHiceF26.nc
 M     dashboard
@@ Line 287: / Line 350: @@
 .2M    cmake
 ...</code>
+===== Which programs should you use? =====
+Your advisor will let you know which (version of which) programs you should use. Some programs are available by default, and you have to use the ''module'' command to access other programs.
+==== Which program am I using? ====
+At any time, you can use the ''which'' command to determine where a program is located. The option to get the //version// information of a program may vary (launch the program without arguments, with ''-v'' or ''%%--%%v'', ...).
+<code> > which ncdump
+/usr/bin/ncdump
+ > ncdump
+ncdump [-c|-h] [-v ...] [[-b|-f] [c|f]] [-l len] [-n name] [-p n[,n]] [-k] [-x] [-s] [-t|-i] [-g ...] [-w] file
+[...]
+netcdf library version 4.3.3.1 of Dec 10 2015 16:44:18 $
+ > which python
+/usr/bin/python
+ > python --version
+Python 2.7.5
+</code>
+==== Using module to access optional programs ====
+Main ''module'' options:
+  * ''module list'': list the currently loaded modules
+  * ''module avail'': list the available modules
+  * ''module load module_a ... module_n'': load modules (automatically including dependencies)
+    * ''module load module_a'': load default version of //module_a//
+    * ''module load module_a/vvv'': load ''vvv'' version of //module_a//
+  * ''module purge'': remove all modules
+Detailed example:
+<code> > which ncview
+ncview: Command not found.
+ > module list
+No Modulefiles Currently Loaded.
+ > module avail
+[...]
+batch_env          grib_api/1.14.0    netcdf/4           python/3.6
+[...]
+glost/0.3.1        ncview/2.1.7       python/2.7
+ > module load ncview netcdf/4
+ > module list
+Currently Loaded Modulefiles:
+) ncview/2.1.7   2) netcdf/4
+ > which ncview
+/usr/local/install/ncview-2.1.7/bin/ncview
+ > which ncdump
+/usr/local/install/netcdf-4.3.2/bin/ncdump</code>
 ===== Useful documentation for beginners =====
@@ Line 324: / Line 445: @@
 ===== Getting help (from the LSCE system administrators) =====
-Send a mail to: [[help-lsce@lsce.ipsl.fr]]
+Send a mail to //help-lsce//
 ==== Describing your problem ====
@@ Line 334: / Line 455: @@
 <code> >ssh -v obelix
 OpenSSH_7.4p1, OpenSSL 1.0.2k-fips  26 Jan 2017
-debug1: Reading configuration data /home/users/jypeter/.ssh/config
+debug1: Reading configuration data /home/users/johndoe/.ssh/config
 debug1: Reading configuration data /etc/ssh/ssh_config
 debug1: /etc/ssh/ssh_config line 58: Applying options for *
@@ Line 340: / Line 461: @@
 debug1: Connection established.
 debug1: key_load_public: No such file or directory
-debug1: identity file /home/users/jypeter/.ssh/id_rsa type -1
+debug1: identity file /home/users/johndoe/.ssh/id_rsa type -1
 [...]
 debug1: Entering interactive session.
@@ Line 349: / Line 470: @@
 debug1: Sending env LANG = en_US
 Last login: Thu Mar  1 15:52:44 2018 from lsce4078.lsce.ipsl.fr
-Disk quotas for user jypeter (uid 6369):
-     Filesystem   space   quota   limit   grace   files   quota   limit   grace
+ >
- prolix3:/users   4558M   9766M  10743M           23741       0       0
-jypeter@obelix3 - ...jypeter - 41 >
 </code>
@@ Line 371: / Line 490: @@
 ==== Interactive access ====
-  - Send a mail to [[help-lsce@lsce.ipsl.fr]], and request an access to the //ssh1// server
+  - Send a mail to //help-lsce//, and request an access to the //ssh1// server
   - Use ''ssh'' to **connect** to //ssh1//
-    * From a Linux/mac desktop: ''ssh -A -X your_lsce_login@ssh1.lsce.ipsl.fr''
+    * From a terminal on a Linux/Windows10/Mac computer: ''ssh -A -X your_lsce_login@ssh1.lsce.ipsl.fr''
-    * From a Windows desktop:
+    * From a Windows computer:
-      * Text only: use [[other:win7apps#putty|Putty]]
+      * Text only: use [[other:win10apps#putty_pageant|Putty]]. Putty allows you to open text terminals on remote computers
-      * Text & graphics. This is more complex to set up, and you need to use one of the options below:
+      * Text **and graphics**: you need to [[https://wiki.lsce.ipsl.fr/pmip3/doku.php/other:win10wsl#using_an_x_server|install an X server]] on your computer in order to display the graphics
-        * use [[other:win7apps#vcxsrv_windows_x_server|VcXsrv]]
+  - You can access all LSCE disks from //ssh1//, but there is only a limited number of programs that you can run, so you have to go from //ssh1// to //obelix// or //irene// with one of the ''ssh'' commands below:
-        * use [[other:win7apps#cygwin-x|cygwin/X]]
-        * use [[other:index#virtualbox_notes|VirtualBox]]
-  - You can access all LSCE disks from //ssh1//, but there is only a limited number of programs that you can run, so you have to go from //ssh1// to //obelix// or //curie// with one of the ''ssh'' commands below:
     * ''ssh obelix''
     * ''ssh your_tgcc_login@curie-ccrt.ccc.cea.fr''
@@ Line 396: / Line 512: @@
 ==== Copying files to/from LSCE ====
-If you need to **transfer** files to/from LSCE, use ''scp'' (on Linux), or an scp client such as [[other:win7apps#winscp|WinSCP]] (on Windows) between your computer and ''ssh1.lsce.ipsl.fr''
+If you need to **transfer** files to/from LSCE, use ''scp'' (on Linux and Windows 10), or a graphical scp client such as [[other:win10apps#winscp|WinSCP]] (on Windows) between your computer and ''ssh1.lsce.ipsl.fr''
-  * Example from a Linux/mac desktop: ''scp -p file_outside_lsce your_lsce_login@ssh1.lsce.ipsl.fr:/home/scratch01/your_lsce_login/''
+  * Example:
+    * Sending **one file** from a Linux/Windows10/Mac computer to your //scratch// directory at LSCE:\\ ''scp -p file_on_your_computer_outside_lsce your_lsce_login@ssh1.lsce.ipsl.fr:/home/scratch01/your_lsce_login/''
+    * Sending recursively **a full directory**:\\ ''scp -pr directory_on_your_computer_outside_lsce your_lsce_login@ssh1.lsce.ipsl.fr:/home/scratch01/your_lsce_login/''
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