Skip to content

Latest commit

 

History

History
37 lines (33 loc) · 1.47 KB

install.md

File metadata and controls

37 lines (33 loc) · 1.47 KB
Raw

Installing HiFiCNV

From conda

The easiest way to install HiFiCNV is through conda:

# create a brand new conda environment and install latest HiFiCNV
conda create -n hificnv -c bioconda hificnv
# OR install latest into current conda environment
conda install hificnv
# OR install a specific version into current conda environment
conda install hificnv=0.1.6b

From GitHub

Conda updates usually lag the GitHub release by a couple days. Use the following instructions to get the most recent version directly from GitHub:

  1. Navigate to the latest release and download the tarball file (e.g. hificnv-{version}-x86_64-unknown-linux-gnu.tar.gz).
  2. Decompress the tar file.
  3. (Optional) Verify the md5 checksum.
  4. Test the binary file by running it with the help option (-h).
  5. Visit Quickstart guide for details on running HiFiCNV.

Example with v0.1.3

# modify this to update the version
VERSION="v0.1.3"
# get the release file
wget https://github.com/PacificBiosciences/HiFiCNV/releases/download/${VERSION}/hificnv-${VERSION}-x86_64-unknown-linux-gnu.tar.gz
# decompress the file into folder ${VERSION}
tar -xzvf hificnv-${VERSION}-x86_64-unknown-linux-gnu.tar.gz
cd hificnv-${VERSION}-x86_64-unknown-linux-gnu
# optional, check the md5 sum
md5sum -c hificnv.md5
# execute help instructions
./hificnv -h