Commit c8e1b41c authored by Lukáš Krupčík's avatar Lukáš Krupčík
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repair links

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......@@ -25,27 +25,27 @@ VPN client installation
You can install VPN client from web interface after successful login with LDAP credentials on address <https://vpn1.it4i.cz/anselm>
![](login.jpeg)
![](../../img/login.jpeg)
According to the Java settings after login, the client either automatically installs, or downloads installation file for your operating system. It is necessary to allow start of installation tool for automatic installation.
![](java_detection.jpeg)
![](../../img/java_detection.jpeg)
![](executionaccess.jpeg)
![](../../img/executionaccess.jpeg)
![](executionaccess2.jpeg)
![](../../img/executionaccess2.jpeg)
After successful installation, VPN connection will be established and you can use available resources from IT4I network.
![](successfullinstalation.jpeg)
![](../../img/successfullinstalation.jpeg)
If your Java setting doesn't allow automatic installation, you can download installation file and install VPN client manually.
![](instalationfile.jpeg)
![](../../img/instalationfile.jpeg)
After you click on the link, download of installation file will start.
![](downloadfilesuccessfull.jpeg)
![](../../img/downloadfilesuccessfull.jpeg)
After successful download of installation file, you have to execute this tool with administrator's rights and install VPN client manually.
......@@ -56,31 +56,31 @@ You can use graphical user interface or command line interface to run VPN client
Before the first login to VPN, you have to fill URL **https://vpn1.it4i.cz/anselm** into the text field.
![](firstrun.jpg)
![](../../img/firstrun.jpg)
After you click on the Connect button, you must fill your login credentials.
![](logingui.jpg)
![](../../img/logingui.jpg)
After a successful login, the client will minimize to the system tray.
If everything works, you can see a lock in the Cisco tray icon.
![](anyconnecticon.jpg)
![](../../img/anyconnecticon.jpg)
If you right-click on this icon, you will see a context menu in which you can control the VPN connection.
![](anyconnectcontextmenu.jpg)
![](../../img/anyconnectcontextmenu.jpg)
When you connect to the VPN for the first time, the client downloads the profile and creates a new item "ANSELM" in the connection list. For subsequent connections, it is not necessary to re-enter the URL address, but just select the corresponding item.
![](Anselmprofile.jpg)
![](../../img/Anselmprofile.jpg)
Then AnyConnect automatically proceeds like in the case of first logon.
![](loginwithprofile.jpeg)
![](../../img/loginwithprofile.jpeg)
After a successful logon, you can see a green circle with a tick mark on the lock icon.
![](successfullconnection.jpg)
![](../../img/successfullconnection.jpg)
For disconnecting, right-click on the AnyConnect client icon in the system tray and select **VPN Disconnect**.
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......@@ -48,7 +48,7 @@ Anselm is cluster of x86-64 Intel based nodes built on Bull Extreme Computing bu
- bullx R423-E3 servers
- cn[208-209]
![](bullxB510.png)
![](../img/bullxB510.png)
**Figure Anselm bullx B510 servers**
......
......@@ -237,7 +237,8 @@ PRACE users should check their project accounting using the [PRACE Accounting To
Users who have undergone the full local registration procedure (including signing the IT4Innovations Acceptable Use Policy) and who have received local password may check at any time, how many core-hours have been consumed by themselves and their projects using the command "it4ifree". Please note that you need to know your user password to use the command and that the displayed core hours are "system core hours" which differ from PRACE "standardized core hours".
>The **it4ifree** command is a part of it4i.portal.clients package, located here: <https://pypi.python.org/pypi/it4i.portal.clients>![external](../img/external.png)
!!! Note "Note"
The **it4ifree** command is a part of it4i.portal.clients package, located here: <https://pypi.python.org/pypi/it4i.portal.clients>![external](../img/external.png)
```bash
$ it4ifree
......
......@@ -21,9 +21,9 @@ Currently two compute nodes are dedicated for this service with following config
Schematic overview
------------------
![rem_vis_scheme](scheme.png "rem_vis_scheme")
![rem_vis_scheme](../img/scheme.png "rem_vis_scheme")
![rem_vis_legend](legend.png "rem_vis_legend")
![rem_vis_legend](../img/legend.png "rem_vis_legend")
How to use the service
----------------------
......@@ -130,7 +130,7 @@ $ vncserver -kill :1
Access the visualization node
-----------------------------
To access the node use a dedicated PBS Professional scheduler queue
**To access the node use a dedicated PBS Professional scheduler queue
qviz**. The queue has following properties:
|queue |active project |project resources |nodes|min ncpus*|priority|authorization|walltime |
......@@ -205,18 +205,18 @@ Tips and Tricks
---------------
If you want to increase the responsibility of the visualization, please djust your TurboVNC client settings in this way:
![rem_vis_settings](turbovncclientsetting.png "rem_vis_settings")
![rem_vis_settings](../img/turbovncclientsetting.png "rem_vis_settings")
To have an idea how the settings are affecting the resulting picture uality three levels of "JPEG image quality" are demonstrated:
1. JPEG image quality = 30
![rem_vis_q3](quality3.png "rem_vis_q3")
![rem_vis_q3](../img/quality3.png "rem_vis_q3")
2. JPEG image quality = 15
![rem_vis_q2](quality2.png "rem_vis_q2")
![rem_vis_q2](../img/quality2.png "rem_vis_q2")
3. JPEG image quality = 10
![rem_vis_q1](quality1.png "rem_vis_q1")
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![rem_vis_q1](../img/quality1.png "rem_vis_q1")
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......@@ -28,7 +28,7 @@ Fairshare priority is used for ranking jobs with equal queue priority.
Fairshare priority is calculated as
![](fairshare_formula.png)
![](../../img/fairshare_formula.png)
where MAX_FAIRSHARE has value 1E6, usage~Project~ is cumulated usage by all members of selected project, usage~Total~ is total usage by all users, by all projects.
......@@ -50,7 +50,7 @@ Eligible time can be seen as eligible_time attribute of job.
Job execution priority (job sort formula) is calculated as:
![](job_sort_formula.png)
![](../../img/job_sort_formula.png)
### Job backfilling
......
......@@ -36,7 +36,7 @@ Anselm users may check current queue configuration at <https://extranet.it4i.cz/
>Check the status of jobs, queues and compute nodes at <https://extranet.it4i.cz/anselm/>![external](../../img/external.png)
![rspbs web interface](rsweb.png)
![rspbs web interface](../../img/rsweb.png)
Display the queue status on Anselm:
......
......@@ -153,12 +153,12 @@ Fluent could be run in parallel only under Academic Research license. To do so t
ANSLIC_ADMIN Utility will be run
![](Fluent_Licence_1.jpg)
![](../../../img/Fluent_Licence_1.jpg)
![](Fluent_Licence_2.jpg)
![](../../../img/Fluent_Licence_2.jpg)
![](Fluent_Licence_3.jpg)
![](../../../img/Fluent_Licence_3.jpg)
ANSYS Academic Research license should be moved up to the top of the list.
![](Fluent_Licence_4.jpg)
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![](../../../img/Fluent_Licence_4.jpg)
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......@@ -78,7 +78,7 @@ Then launch the debugger with the ddt command followed by the name of the execut
A submission window that appears have a prefilled path to the executable to debug. You can select the number of MPI processors and/or OpenMP threads on which to run and press run. Command line arguments to a program can be entered to the "Arguments " box.
![](ddt1.png)
![](../../../img/ddt1.png)
To start the debugging directly without the submission window, user can specify the debugging and execution parameters from the command line. For example the number of MPI processes is set by option "-np 4". Skipping the dialog is done by "-start" option. To see the list of the "ddt" command line parameters, run "ddt --help".
......
......@@ -11,7 +11,7 @@ CUBE is a graphical performance report explorer for displaying data from Score-P
Each dimension is organized in a tree, for example the time performance metric is divided into Execution time and Overhead time, call path dimension is organized by files and routines in your source code etc.
![](Snmekobrazovky20141204v12.56.36.png)
![](../../../img/Snmekobrazovky20141204v12.56.36.png)
*Figure 1. Screenshot of CUBE displaying data from Scalasca.*
......@@ -28,7 +28,8 @@ Usage
-----
CUBE is a graphical application. Refer to Graphical User Interface documentation for a list of methods to launch graphical applications on Anselm.
>Analyzing large data sets can consume large amount of CPU and RAM. Do not perform large analysis on login nodes.
!!! Note "Note"
Analyzing large data sets can consume large amount of CPU and RAM. Do not perform large analysis on login nodes.
After loading the apropriate module, simply launch cube command, or alternatively you can use scalasca -examine command to launch the GUI. Note that for Scalasca datasets, if you do not analyze the data with scalasca -examine before to opening them with CUBE, not all performance data will be available.
......
......@@ -95,7 +95,7 @@ Sample output :
Number of core PMU fixed counters: 3
Width of fixed counters: 48 bits
Nominal core frequency: 2400000000 Hz
Package thermal spec power: 115 Watt; Package minimum power: 51 Watt; Package maximum power: 180 Watt;
Package thermal spec power: 115 Watt; Package minimum power: 51 Watt; Package maximum power: 180 Watt;
Socket 0: 1 memory controllers detected with total number of 4 channels. 2 QPI ports detected.
Socket 1: 1 memory controllers detected with total number of 4 channels. 2 QPI ports detected.
Number of PCM instances: 2
......@@ -265,7 +265,7 @@ Sample output:
Number of core PMU fixed counters: 3
Width of fixed counters: 48 bits
Nominal core frequency: 2400000000 Hz
Package thermal spec power: 115 Watt; Package minimum power: 51 Watt; Package maximum power: 180 Watt;
Package thermal spec power: 115 Watt; Package minimum power: 51 Watt; Package maximum power: 180 Watt;
Socket 0: 1 memory controllers detected with total number of 4 channels. 2 QPI ports detected.
Socket 1: 1 memory controllers detected with total number of 4 channels. 2 QPI ports detected.
Number of PCM instances: 2
......
......@@ -11,7 +11,7 @@ Intel*® *VTune™ Amplifier, part of Intel Parallel studio, is a GUI profilin
bandwidth
- Power usage analysis - frequency and sleep states.
![screenshot](vtune-amplifier.png)
![screenshot](../../../img/vtune-amplifier.png)
Usage
-----
......
......@@ -66,7 +66,7 @@ Prints which preset events are available on the current CPU. The third column in
Prints which native events are available on the current CPU.
### class="s1">papi_cost
### papi_cost
Measures the cost (in cycles) of basic PAPI operations.
......@@ -193,7 +193,8 @@ Now the compiler won't remove the multiplication loop. (However it is still not
### Intel Xeon Phi
>PAPI currently supports only a subset of counters on the Intel Xeon Phi processor compared to Intel Xeon, for example the floating point operations counter is missing.
!!! Note "Note"
PAPI currently supports only a subset of counters on the Intel Xeon Phi processor compared to Intel Xeon, for example the floating point operations counter is missing.
To use PAPI in [Intel Xeon Phi](../intel-xeon-phi/) native applications, you need to load module with " -mic" suffix, for example " papi/5.3.2-mic" :
......
......@@ -16,7 +16,7 @@ There are currently two versions of Score-P version 1.2.6 [modules](../../enviro
Instrumentation
---------------
There are three ways to instrument your parallel applications in order to enable performance data collection :
There are three ways to instrument your parallel applications in order to enable performance data collection:
1. Automated instrumentation using compiler
2. Manual instrumentation using API calls
......
......@@ -135,11 +135,11 @@ Now you can run the parallel debugger using:
When following dialog appears click on "Yes"
![](totalview1.png)
![](../../../img/totalview1.png)
At this point the main TotalView GUI window will appear and you can insert the breakpoints and start debugging:
![](totalview2.png)
![](../../../img/totalview2.png)
### Debugging a parallel code - option 2
......
......@@ -3,7 +3,7 @@ Vampir
Vampir is a commercial trace analysis and visualisation tool. It can work with traces in OTF and OTF2 formats. It does not have the functionality to collect traces, you need to use a trace collection tool (such as [Score-P](../../../salomon/software/debuggers/score-p/)) first to collect the traces.
![](Snmekobrazovky20160708v12.33.35.png)
![](../../../img/Snmekobrazovky20160708v12.33.35.png)
Installed versions
------------------
......
......@@ -31,7 +31,7 @@ Read more at <http://software.intel.com/sites/products/documentation/doclib/stdx
Sandy Bridge/Haswell binary compatibility
-----------------------------------------
Anselm nodes are currently equipped with Sandy Bridge CPUs, while Salomon will use Haswell architecture. >The new processors are backward compatible with the Sandy Bridge nodes, so all programs that ran on the Sandy Bridge processors, should also run on the new Haswell nodes. >To get optimal performance out of the Haswell processors a program should make use of the special AVX2 instructions for this processor. One can do this by recompiling codes with the compiler flags >designated to invoke these instructions. For the Intel compiler suite, there are two ways of doing >this:
Anselm nodes are currently equipped with Sandy Bridge CPUs, while Salomon will use Haswell architecture. >The new processors are backward compatible with the Sandy Bridge nodes, so all programs that ran on the Sandy Bridge processors, should also run on the new Haswell nodes. >To get optimal performance out of the Haswell processors a program should make use of the special AVX2 instructions for this processor. One can do this by recompiling codes with the compiler flags >designated to invoke these instructions. For the Intel compiler suite, there are two ways of doing this:
- Using compiler flag (both for Fortran and C): -xCORE-AVX2. This will create a binary with AVX2 instructions, specifically for the Haswell processors. Note that the executable will not run on Sandy Bridge nodes.
- Using compiler flags (both for Fortran and C): -xAVX -axCORE-AVX2. This will generate multiple, feature specific auto-dispatch code paths for Intel® processors, if there is a performance benefit. So this binary will run both on Sandy Bridge and Haswell processors. During runtime it will be decided which path to follow, dependent on which processor you are running on. In general this will result in larger binaries.
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