This page was last updated on Thursday, 31-Dec-2015 12:23:59 CST

Installation notes for svtyper version f1e2f59 Oct. 5, 2015

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Prerequisites

None

Installation

1. $ cd /programinstallers/
2. $ git clone https://github.com/hall-lab/svtyper.git
3. $ cd svtyper
4. $ mkdir /usr/local/bin/svtyper
5. $ cp -pv svtyper scripts/* /usr/local/bin/svtyper/

   `svtyper' -> `/usr/local/bin/svtyper/svtyper'
   `scripts/batchtyper' -> `/usr/local/bin/svtyper/batchtyper'
   `scripts/sv_classifier.py' -> `/usr/local/bin/svtyper/sv_classifier.py'
   `scripts/sv_counts.sh' -> `/usr/local/bin/svtyper/sv_counts.sh'
   `scripts/update_info.py' -> `/usr/local/bin/svtyper/update_info.py'
   `scripts/vcf_allele_freq.py' -> `/usr/local/bin/svtyper/vcf_allele_freq.py'
   `scripts/vcf_group_multiline.py' -> `/usr/local/bin/svtyper/vcf_group_multiline.py'
   `scripts/vcf_modify_header.py' -> `/usr/local/bin/svtyper/vcf_modify_header.py'
   `scripts/vcf_paste.py' -> `/usr/local/bin/svtyper/vcf_paste.py'

6. Add to default PATH
   $ sudo nano /etc/profile
   …
   PATH="$PATH:/usr/local/bin/svtyper"
   …
7. Cleanup
   $ cd ..
8. $ rm svtyper -rf