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RAREMETAL DOWNLOAD & BUILD

1,564 bytes removed, 11:44, 14 March 2019
Release 4.15.0; simplify release notes to point to self-contained repository.
[[Category:RAREMETAL]]
[[Category:RAREMETALWORKER]]
== Useful Wiki Pages ==
There are several pages in this Wiki that may be useful to RAREMETALWORKER users. Here are links to key pages:
* The [[RAREMETALWORKER | '''RAREMETALWORKER documentation''']]
* The [[RAREMETAL_Documentation | '''RAREMETAL documentation''']]
* The [[RAREMETAL FAQ | '''FAQ''']]
* The [[RAREMETAL_Change_Log | '''Change Log''']]
== Where to Download =GitHub===
We have tested our All source code package is available on several platforms, including Linux/Ubuntu, Linux/Debian, Linux/RedHat, Linux/CentOS, Mac OS X 10.8, CygWIN64 and MinGW for Windows.GitHub:
From version 4https://github.9, RAREMETALWORKER and RAREMETAL source code are distributed within the same package, which can be downloaded in the following:com/statgen/Raremetal
* The source package See README.md for instructions on how to compile RAREMETAL for your environment. It should be possible to compile in Mac OS and Linux can be downloaded here: [[Media:LINUX_raremetalenvironments.0.4.9.tgz ‎|You will need '''Cmake''' and '''for LinuxCget''']] available.
* The source Since version 4.13.6, RAREMETALWORKER and RAREMETAL are distributed within the same package for Linux can in this repository. More information on changes may be downloaded here: [found at our [Mediahttps:MAC_raremetal//github.0.4.9com/statgen/raremetal/releases releases page].tgz ‎|'''for MAC OS X''']]
* The source package for Linux can be downloaded here: [[Media:CYGWIN64_raremetal.0.4.9.tgz ‎|'''for Cygwin64 in Windows''']]===SCRIPTS===
====Calculating Odds Ratio from RAREMETALWORKER output====* The source package for Linux can be downloaded here: [[Media:MINGW_raremetal.0.4.9.tgz ‎|If you want to estimate '''for MinGW in WindowsOdds Ratios''']] For binary executablesof variants analyzed by RAREMETALWORKER, we only distribute the one for Linux. For the other platforms, we recommend you build from source code that can be downloaded from above. * The binary of RAREMETALWORKER to run on Linux can also be downloaded here: script [[Media:RMW.binary.0.4.9CalculateOddsRatio.tgz|'''RAREMETALWORKER BINARY for LinuxcalculateOddsRatio.pl''']] == How can help you augment RAREMETALWORKER output with estimated odds ratio to Compile == * gfortran is necessary to build RAREMETAL. If your system does not have it yet, please go to [http://gcc.gnu.org/wiki/GFortranBinaries '''GNU gfortran'''] for downloadthe last column. * If you choose to build from the source files, you could start from decompress The script can also be found in the RAREMETAL package using the following command: prompt> tar xvf LINUX_raremetal.0.4.913.tgz prompt> cd raremetal_0.4.9 * If you prefer to build two tools all at once6 and later, then do the following: prompt> cd raremetal prompt> make #This builds RAREMETAL and RAREMETALWORKER under bin/ directory.  * If you prefer to build individual tool: prompt> cd raremetal/raremetalworker/src prompt> make #This will build RAREMETALWORKER under '''raremetal/binscript/ directorycalculateOddsRatio prompt> cd raremetal/raremetal/src prompt> make #This will build RAREMETAL under raremetal/bin/ directory. * If your compiler allows openmp (parallel computing), then use the following to build RAREMETALWORKER that allows parallel computing: prompt> cd raremetal/raremetalworker/src prompt> make openmp #This will build RAREMETALWORKER under raremetal/bin/ directory. * If you prefer to use the binary file downloaded above, then no compiling is needed, but it is not guaranteed to work due to system and library requirements. For compiling questions, please go to [http://genome.sph.umich.edu/wiki/RAREMETAL_FAQ pl''' FAQ'''] for more information.
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