Installation Instructions - Revision history

Tomh: samsrcv5

2021-07-05T16:15:02Z

samsrcv5

← Older revision		Revision as of 12:15, 5 July 2021
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	=== Installing SAM from Source Code ===		=== Installing SAM from Source Code ===

			There is a newer version of the SAM Suite, V5. We removed some problematic licenced code, and switched over to GSL for many of the mathematical functions. This is the latest tarball: [[:Media:SAMsrcV5-20210705.tgz\|SAMsrcV5-20210705.tgz]].

			==== Older versions are below. ====

	Linux system (tested under CentOS 6.x, CentOS 7.x, Ubuntu 14.04 LTS, Ubuntu 16.04 LTS, Fedora 27)		Linux system (tested under CentOS 6.x, CentOS 7.x, Ubuntu 14.04 LTS, Ubuntu 16.04 LTS, Fedora 27)

Nugenta at 20:48, 1 March 2019

2019-03-01T20:48:40Z

← Older revision		Revision as of 16:48, 1 March 2019
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	If you have any problems installing SAMsrcV3, please contact MEG Core staff for assistance.		If you have any problems installing SAMsrcV3, please contact MEG Core staff for assistance.

			Note that this source code, as delivered, is configured to make executables that are compatible with CTF MEG datasets. The software can, however, be configured to process 4D/BTi datasets. In order to compile the software for 4D/BTi compatibility, edit config/Makefile.config to uncomment the following line:

			CFLAGS += -DBTI

			The source code can then be compiled as above. If you have already compiled for CTF MEG, clear the previous installation using

			make clean

	=== Using SAM on the NIH HPC equipment ===		=== Using SAM on the NIH HPC equipment ===

Nugenta at 20:27, 1 March 2019

2019-03-01T20:27:00Z

← Older revision		Revision as of 16:27, 1 March 2019
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	tar -xzvf SAMsrcV3-20170205_gcc-7.tgz		tar -xzvf SAMsrcV3-20170205_gcc-7.tgz

	This will create a directory called SAMsrcV3. Within that directory is a config directory. You may need to change Makefile.site to ensure that SAM can find the fftw3 libraries. Once you have made any necessary alterations, from the SAMsrcV3 directory, type		This will create a directory called SAMsrcV3. Within that directory is a config directory. You may need to change Makefile.site to ensure that SAM can find the fftw3 libraries. By default, the binaries will be installed in the SAMsrcV3/bin directory, this can be changed by editing the config/Makefile.config file. Once you have made any necessary alterations, from the SAMsrcV3 directory, type

	make		make

Nugenta at 18:22, 1 March 2019

2019-03-01T18:22:57Z

← Older revision		Revision as of 14:22, 1 March 2019
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	tar -xzvf SAMsrcV3-20170205_gcc-7.tgz		tar -xzvf SAMsrcV3-20170205_gcc-7.tgz

			This will create a directory called SAMsrcV3. Within that directory is a config directory. You may need to change Makefile.site to ensure that SAM can find the fftw3 libraries. Once you have made any necessary alterations, from the SAMsrcV3 directory, type
	This will create a directory called SAMsrcV3.

			make

			If you have any problems installing SAMsrcV3, please contact MEG Core staff for assistance.

	=== Using SAM on the NIH HPC equipment ===		=== Using SAM on the NIH HPC equipment ===

Nugenta at 18:20, 1 March 2019

2019-03-01T18:20:29Z

← Older revision		Revision as of 14:20, 1 March 2019
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	The latest SAM software is now available on the NIH HPC systems (Felix, Helix, and Biowulf) as a module. At the prompt, type		The latest SAM software is now available on the NIH HPC systems (Felix, Helix, and Biowulf) as a module. At the prompt, type

	module load samsrcv3		module load samsrcv3

Nugenta at 18:20, 1 March 2019

2019-03-01T18:20:06Z

← Older revision		Revision as of 14:20, 1 March 2019
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	=== Using SAM on the NIH HPC equipment ===		=== Using SAM on the NIH HPC equipment ===

	The latest SAM software is now available on the NIH HPC systems (Felix, Helix, and Biowulf) as a module. At the prompt, type ~~module load samsrcv3~~		The latest SAM software is now available on the NIH HPC systems (Felix, Helix, and Biowulf) as a module. At the prompt, type

			module load samsrcv3

Nugenta at 18:19, 1 March 2019

2019-03-01T18:19:25Z

← Older revision		Revision as of 14:19, 1 March 2019
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	This will create a directory called SAMsrcV3.		This will create a directory called SAMsrcV3.

			=== Using SAM on the NIH HPC equipment ===

			The latest SAM software is now available on the NIH HPC systems (Felix, Helix, and Biowulf) as a module. At the prompt, type module load samsrcv3

Nugenta: Created page with "=== Installing SAM from Source Code === Linux system (tested under CentOS 6.x, CentOS 7.x, Ubuntu 14.04 LTS, Ubuntu 16.04 LTS, Fedora 27) The latest source tarball is avai..."

2019-03-01T18:17:01Z

Created page with "=== Installing SAM from Source Code === Linux system (tested under CentOS 6.x, CentOS 7.x, Ubuntu 14.04 LTS, Ubuntu 16.04 LTS, Fedora 27) The latest source tarball is avai..."

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=== Installing SAM from Source Code ===

Linux system (tested under CentOS 6.x, CentOS 7.x, Ubuntu 14.04 LTS, Ubuntu 16.04 LTS, Fedora 27)
The latest source tarball is available here: [[:Media:SAMsrcV3-20170205.tgz|SAMsrcV3-20170205.tgz]].
Download and unpack with:
tar -xzvf SAMsrcV3-20170205.tgz

MacOS Users using the '''clang''' compiler (tested under macOS 10.13.x)
The latest source tarball is available here: [[:Media:SAMsrcV3-20170205_clang.tgz|SAMsrcV3-20170205_clang.tgz]].
Download and unpack with:
tar -xzvf SAMsrcV3-20170205_clang.tgz

MacOS Users using the '''gcc-7''' compiler (tested under macOS 10.13.x)
The latest source tarball is available here: [[:Media:SAMsrcV3-20170205_gcc-7.tgz|SAMsrcV3-20170205_gcc-7.tgz]].
Download and unpack with:
tar -xzvf SAMsrcV3-20170205_gcc-7.tgz

This will create a directory called SAMsrcV3.