Applications/Savu - Revision history

Pysdlb: /* Further Information */

2023-03-23T09:51:33Z

‎Further Information

2023-03-23T09:50:43Z

‎Further Information

2022-11-16T10:58:26Z

‎Navigation

2019-05-24T13:59:25Z

2019-01-03T10:28:06Z

2019-01-03T10:21:42Z

2018-06-07T14:18:22Z

2017-08-17T11:13:20Z

‎Batch Submission

2017-08-17T11:12:51Z

‎Batch Submission

2017-08-17T11:11:58Z

‎Batch Submission

@@ Line 72: / Line 72: @@
 ==Further Information==
-[http://savu.readthedocs.io/en/latest/user_guides/user_guide Savu user guide]
+[http://savu.readthedocs.io/ Savu guide]
 {{Modulepagenav}}

@@ Line 72: / Line 72: @@
 ==Further Information==
-[http://savu.readthedocs.io/en/latest/user_guides/user_guide| Savu user guide]
+[http://savu.readthedocs.io/en/latest/user_guides/user_guide Savu user guide]
 {{Modulepagenav}}

← Older revision		Revision as of 10:58, 16 November 2022
Line 74:		Line 74:
	[http://savu.readthedocs.io/en/latest/user_guides/user_guide\| Savu user guide]		[http://savu.readthedocs.io/en/latest/user_guides/user_guide\| Savu user guide]

−	~~==Navigation==~~	+	{{Modulepagenav}}
−
−	* [[Main_Page\|Home]]
−	~~* [[Applications\|Application support]] *~~
−	* [[General\|General]]
−	* [[Programming\|Programming support]]

@@ Line 2: / Line 2: @@
 * Description: Python package to assist with the processing and reconstruction of parallel-beam tomography data.
-* Version: 2.0
+* Version: 2.3
-* Modules: savu/2.3/gcc-5.2.0/openmpi-2.0.2
+* Modules:  savu/2.3/gcc-5.2.0/openmpi-2.0.2 and savu/2.3.1/gcc-5.2.0/openmpi-2.0.2
 ==Usage Examples==
@@ Line 75: / Line 74: @@
 [http://savu.readthedocs.io/en/latest/user_guides/user_guide| Savu user guide]
-{|
+==Navigation==
-|style="width:5%; border-width: 0" | [[File:icon_home.png]]
 * [[Main_Page|Home]]
-* [[Applications|Application support]]
+* [[Applications|Application support]] *
 * [[General|General]]
 * [[Programming|Programming support]]

@@ Line 6: / Line 6: @@
 ==Usage Examples==
 ===Interactive===
-this mode is usually used on a smaller slice of your data. to define and make sure what kind of processing you want to run and start tuning it till it shows the expected behaviour.
+This mode is usually used on a smaller slice of your data. to define and make sure what kind of processing you want to run and start tuning it till it shows the expected behaviour.
 '''Note''': savu supports interactive mode (as below) and execution mode running as an interpreted script.
@@ Line 69: / Line 68: @@
 <pre style="background-color: #000000; color: white; border: 2px solid black; font-family: monospace, sans-serif;">
 [username@login01 ~]$ sbatch savu.job
-Submitted batch job 289522
+Submitted batch job 589522
 </pre>

@@ Line 3: / Line 3: @@
 * Description: Python package to assist with the processing and reconstruction of parallel-beam tomography data.
 * Version: 2.0
-* Modules: savu/2.0/gcc-5.2.0/openmpi-2.0.2
+* Modules: savu/2.3/gcc-5.2.0/openmpi-2.0.2
 ==Usage Examples==
@@ Line 19: / Line 19: @@
 Job ID 402968 connecting to c059, please wait...
 Last login: Wed Jul 12 16:23:48 2017 from 10.254.5.246
-[username@c059 ~]$ module add savu/2.0/gcc-5.2.0/openmpi-2.0.2
+[username@c059 ~]$ module add savu/2.3/gcc-5.2.0/openmpi-2.0.2
 [username@c059~]$ savu_config
@@ Line 30: / Line 30: @@
 </pre>
-This will run basic_tomo_process.nxs on file 24737.nxs and place the output in your current directory under results
+=== Batch Submission ===
-=== Batch Submission ===
+Once you are happy with the results you got  you can start submitting a bigger jobs to the cluster. Below is an example of running savu_mpi to process data on multiple nodes.
-Note: the Current installtion suns only on compute node. the GPU version will be installed later
+Note: the current installation does support GPU via CUDA (version 8) libraries
 <pre style="background-color: #C8C8C8; color: black; font-family: monospace, sans-serif;">
@@ Line 59: / Line 49: @@
 module purge
-module add savu/2.0/gcc-5.2.0/openmpi-2.0.2
+module add savu/2.3/gcc-5.2.0/openmpi-2.0.2
 #This line will calculate the total number of CPUs and place it in CPUs variable

@@ Line 67: / Line 67: @@
 savu_mpijob.sh ./apps/savu/test/24737.nxs ./apps/savu/test/basic_tomo_process.nxs ./apps/savu/test $CPUs 0
 </pre>
   Savu MPI run command:
 *savu_mpijob.sh  -->this is the main run command

@@ Line 65: / Line 65: @@
 echo " will run on $CPUs CPUs"
-savu_mpijob.sh  ./apps/savu/test/24737.nxs  ./apps/savu/test/basic_tomo_process.nxs ./apps/savu/test $CPUs 0
+savu_mpijob.sh ./apps/savu/test/24737.nxs ./apps/savu/test/basic_tomo_process.nxs ./apps/savu/test $CPUs 0
 </pre>
 Break down on each of the above items in the savu run command: