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| The main FreAlign documentation can be [[ http://emlab.rose2.brandeis.edu/sites/default/files/readme_frealign.txt|found here]]. | The main Frealign documentation can be [[ http://emlab.rose2.brandeis.edu/sites/default/files/readme_frealign.txt|found here]]. |
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| 1) [[http://emlab.rose2.brandeis.edu/frealign|Download FreAlign here]] | 1) [[http://emlab.rose2.brandeis.edu/frealign|Download Frealign here]] |
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| 2) Move the FreAlign tar file to your desired installation location | 2) Move the Frealign tar file to your desired installation location |
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| 3) Untar FreAlign: tar -xvf frealign_v8.09_######.tar.gz | 3) Untar Frealign: tar -xvf frealign_v8.09_######.tar.gz |
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| 5) FreAlign is ready to be run. From the command line: | 5) Frealign is ready to be run. From the command line: |
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| Since the Mac doesn't come with a Fortran compiler, we include a binary courtesy of Chuck Sindelar in Dr. Grigorieff's lab. |
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| 1) Download FreAlign from the above link. | 1) [[attachment:frealign|Download Frealign here]] |
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| 2) Move the FreAlign tar file to your desired installation location | 2) chmod a+x frealign |
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| . ex. mv frealign_v8.09_######.tar.gz /home/username/ 3) Unzip FreAlign: tar -xvf frealign_v8.09_######.tar.gz 4) You will need a fortran compiler installed on your Mac. 5) Change to the source directory in your frealign installation directory: . cd /home/username/frealign_v8.09/src 6) Use the appropriate Makefile. Assuming you are using the Intel 64-bit x86: . make -f Makefile_OSX_86-64_intel |
3) move frealign to a folder in your path |
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| on Windows is | on Windows is not for the faint of heart. 1) [[attachment:frealign.exe|Download the windows executable here]]. |
Frealign
Overview
[[http://emlab.rose2.brandeis.edu/frealign|Frealign] is a program for high-resolution refinement of 3D reconstructions from cryo-EM images of single particles, originally developed at the MRC/LMB. It is now developed and maintained by the Grigorieff lab at Brandeis.
The main Frealign documentation can be found here.
Installation
Linux:
2) Move the Frealign tar file to your desired installation location
- ex. mv frealign_v8.09_######.tar.gz /home/username/
3) Untar Frealign: tar -xvf frealign_v8.09_######.tar.gz
4) In your .bashrc, include the command:
- export PATH=/home/username/frealign_v8.09/bin:$PATH
5) Frealign is ready to be run. From the command line:
- frealign_v8.exe
OSX: Since the Mac doesn't come with a Fortran compiler, we include a binary courtesy of Chuck Sindelar in Dr. Grigorieff's lab.
2) chmod a+x frealign
3) move frealign to a folder in your path
Windows: Dr. Grigorieff has kindly made a windows executable available for download, since establishing a Fortran build environment on Windows is not for the faint of heart.