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Jw297: /* Red Hat Developer Toolset */

2018-10-08T13:11:56Z

‎Red Hat Developer Toolset

2016-08-03T13:29:57Z

2016-08-03T13:29:37Z

2016-08-03T11:09:39Z

2016-08-03T10:45:43Z

2016-05-12T11:28:29Z

‎Simple commands on all nodes, giving node name

2016-05-12T11:28:13Z

2016-05-12T11:27:21Z

Created page with " ==Simple commands on all nodes, giving node name == for i in node{1..10}; do ssh $i 'echo -n "$HOSTNAME: "; uname -a';done"

New page

==Simple commands on all nodes, giving node name ==

for i in node{1..10}; do ssh $i 'echo -n "$HOSTNAME: "; uname -a';done

← Older revision		Revision as of 13:11, 8 October 2018
Line 35:		Line 35:

	This will open a new bash subprocess where the gcc will be version 4.8		This will open a new bash subprocess where the gcc will be version 4.8
		+
		+
		+	There is also GCC 6.3 installed too.
		+
		+	source /opt/rh/devtoolset-6/enable
		+
		+	Note: loads it's own python and perl.

	== harvest-tools ==		== harvest-tools ==

@@ Line 11: / Line 11: @@
   This is a unix/linux based system of 11 high speed machines for processing bioinformatics datasets. The frontend or gateway machine is called marvin, while the other 10 are called nodes, numbered 1 to 10. Most operations are done using command line, although it's possible to use Graphical Interface, not very many programs have this available.
-−
   Further details here:
   http://bioinformatics.st-andrews.ac.uk/cluster/

@@ Line 4: / Line 4: @@
 * Gives the running kernel version of all the nodes:
   for i in node{1..10}; do ssh $i 'echo -n "$HOSTNAME: "; uname -a';done
 =Compiling software=

@@ Line 17: / Line 17: @@
 == harvest-tools ==
-* Very unconventional manner of installation, create symlinks from the buildtree.
+* Very unconventional manner of installation, creates symlinks from the buildtree.
 * definitely needs RH Developer Toolset

← Older revision		Revision as of 10:45, 3 August 2016
Line 4:		Line 4:
	* Gives the running kernel version of all the nodes:		* Gives the running kernel version of all the nodes:
	for i in node{1..10}; do ssh $i 'echo -n "$HOSTNAME: "; uname -a';done		for i in node{1..10}; do ssh $i 'echo -n "$HOSTNAME: "; uname -a';done
		+
		+	=Compiling software=
		+
		+	== Red Hat Developer Toolset ==
		+
		+	Seeing as the cluster runs with RHEL 6 which, though updated continuously, was released in 2011, there are various things it's incapable of. Primary among these is a gcc compiler with the C++ standard C++11, which alot of software is now using. THis requires gcc version 4.8 instead of the 4.4 RHEL6 uses. The solution is the poorly named developer toolset, which Red Hat makes available. To invoke it:
		+
		+	scl enable devtoolset-2 "bash"
		+
		+	This will open a new bash subprocess where the gcc will be version 4.8
		+
		+	== harvest-tools ==
		+
		+	* Very unconventional manner of installation, create symlinks from the buildtree.
		+	* definitely needs RH Developer Toolset

← Older revision		Revision as of 11:28, 12 May 2016
Line 2:		Line 2:
	==Simple commands on all nodes, giving node name ==		==Simple commands on all nodes, giving node name ==

		+	* Gives the running kernel version of all the nodes
	for i in node{1..10}; do ssh $i 'echo -n "$HOSTNAME: "; uname -a';done		for i in node{1..10}; do ssh $i 'echo -n "$HOSTNAME: "; uname -a';done