vep-software
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| Both sides previous revisionPrevious revisionNext revision | Previous revision | ||
| vep-software [2018/04/15 21:04] – aorth | vep-software [2023/05/22 06:10] (current) – aorth | ||
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| Line 5: | Line 5: | ||
| ===== Information ===== | ===== Information ===== | ||
| - | * Latest Version: | + | * Latest Version: |
| * Added: February, 2017 | * Added: February, 2017 | ||
| - | * Updated: | + | * Updated: |
| - | * Link: http://www.ensembl.org/info/ | + | * Link: https://github.com/Ensembl/ensembl-vep |
| - | * Annotations: | + | * Annotations: |
| ===== Usage ===== | ===== Usage ===== | ||
| Line 17: | Line 17: | ||
| Load one version into your environment and run it: | Load one version into your environment and run it: | ||
| - | < | + | < |
| - | $ vep --cache / | + | $ vep --cache / |
| - | </ | + | |
| - | **N.B.** The VEP cache is installed in ''/ | + | **N.B.** The VEP cache is installed in ''/ |
| ===== Installation ====== | ===== Installation ====== | ||
| Line 27: | Line 26: | ||
| < | < | ||
| - | $ curl -L -O https:// | + | $ curl -L -O https:// |
| - | $ unzip 92.1.zip | + | $ unzip 109.3.zip |
| - | $ sudo yum install perl-DBI perl-DBD-mysql perl-JSON perl-perlIO-gzip | + | $ sudo dnf install perl-DBI perl-DBD-mysql perl-JSON perl-perlIO-gzip |
| - | $ module load htslib/1.6 | + | $ cd ensembl-vep-release-109.3 |
| - | $ cd ensembl-vep-release-92.1 | + | |
| $ cpanm -l . Set:: | $ cpanm -l . Set:: | ||
| $ mkdir cache | $ mkdir cache | ||
| + | $ module load htslib/1.9 # use our own, instead of the one installed by INSTALL.pl | ||
| $ PERL5LIB=lib/ | $ PERL5LIB=lib/ | ||
| - | $ sudo mkdir -p / | + | $ sudo mkdir -p / |
| - | $ sudo cp -r * / | + | $ sudo cp -r * / |
vep-software.1523826264.txt.gz · Last modified: by aorth