samtools-software
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samtools-software [2017/02/05 11:38] – joguya | samtools-software [2018/06/01 19:31] – aorth | ||
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samtools provide various utilities for manipulating alignments in the SAM format, including sorting, merging, indexing and generating alignments in a per-position format. | samtools provide various utilities for manipulating alignments in the SAM format, including sorting, merging, indexing and generating alignments in a per-position format. | ||
- | * Latest Version: 1.3.1 | + | * Latest Version: 1.8 |
- | * Updated: February, 2017 | + | |
* Added: February, 2015 | * Added: February, 2015 | ||
- | * Link: http:// | + | |
+ | | ||
===== Usage ===== | ===== Usage ===== | ||
Line 14: | Line 14: | ||
Load a particular version of samtools: | Load a particular version of samtools: | ||
- | < | + | < |
===== Installation ===== | ===== Installation ===== | ||
Notes from the sysadmin during installation: | Notes from the sysadmin during installation: | ||
- | < | + | < |
- | $ cd /tmp | + | $ wget https:// |
- | $ wget -qO- "https:// | + | $ tar xf samtools-1.8.tar.bz2 |
- | $ cd samtools-1.3.1/ | + | $ cd samtools-1.8 |
- | $ scl enable devtoolset-2 bash | + | $ ./configure --enable-plugins --enable-libcurl --prefix=/export/ |
- | $ sudo mkdir / | + | $ make |
- | $ sudo chown -R joguya: | + | $ sudo mkdir / |
- | $ ./configure --enable-plugins --enable-libcurl --with-plugin-path=$PWD/htslib-1.3.1 --prefix=/ | + | $ sudo chown aorth:aorth / |
- | $ make all install-htslib | + | $ make install |
- | $ make install | + | $ sudo chown -R root:root / |
- | $ sudo chown -R root:root / | + | |
- | </ | + | This links against a system-wide version of htslib/1.8. |
samtools-software.txt · Last modified: 2022/06/23 09:35 by aorth