Mercurial > repos > lomereiter > sambamba_filter
changeset 6:f81259dcaea7
updated readme
| author | lomereiter <lomereiter@gmail.com> |
|---|---|
| date | Tue, 04 Nov 2014 18:38:00 +0300 |
| parents | 123168c85390 |
| children | af897e0a3c13 |
| files | readme.txt |
| diffstat | 1 files changed, 2 insertions(+), 11 deletions(-) [+] |
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--- a/readme.txt Tue Nov 04 18:34:37 2014 +0300 +++ b/readme.txt Tue Nov 04 18:38:00 2014 +0300 @@ -1,14 +1,5 @@ This tool uses the sambamba view command to filter BAM/SAM on flags, fields, tags, and region. Input is SAM or BAM file. -There are a three options for installation of sambamba: - - 1) Automated toolshed installation. This requires that a D2 compiler (dmd >= 2.063) is installed. The automated installation will attempt to use the dmd compiler and thus **will not be optimized**. - - 2) Manual compilation. For performance reasons, the sambamba developers recommend you use either GDC or LDC as they use GCC and LLVM backends and do a much better job at optimization. You should then use the sambamba-ldmd2-64 make target. See https://github.com/lomereiter/sambamba/wiki/Command-line-tools for more information. +The tool works only on 64bit Linux and Mac OS X systems. - 3) Precompiled binary (recommended). You may wish to simply use a precompiled binary of sambamba available at https://www.dropbox.com/sh/v05fsb5aarob3xe/iUHgyud31a/sambamba. - -If you choose option 2 or 3, sambamba may be installed as a "Managed Dependency" in Galaxy's "tool_dependency_dir". See http://wiki.galaxyproject.org/Admin/Config/Tool%20Dependencies. - -The development repository for the galaxy wrapper is at: https://bitbucket.org/lance_parsons/sambamba_filter_galaxy_wrapper -The sambamba development repository is at: https://github.com/lomereiter/sambamba. +The development repository is at: https://github.com/lomereiter/sambamba.