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But I cannot find the binary run_pepper_margin_deepvariant described in your README to run variant calling. Is there anything special that I need to do to install it?
The text was updated successfully, but these errors were encountered:
Hello, the run_pepper_margin_deepvariant is a part of the docker, it is not part of PEPPER. The docker contains a wrapper that runs PEPPER-Margin-DeepVariant simultaneously. For local development you only installed PEPPER.
Hello, thanks for your answer! Would it be possible to obtain the Dockerfile describing how the docker is built as well as the code of the run_pepper_margin_deepvariant wrapper?
Dear Pepper team,
I am trying to install
PEPPER
locally and have used the following:apt-get install -y cmake \ make \ git \ gcc \ g++ \ autoconf \ bzip2 \ lzma-dev \ zlib1g-dev \ libcurl4-openssl-dev \ libpthread-stubs0-dev \ libbz2-dev \ liblzma-dev \ libhdf5-dev \ python3-pip \ python3-virtualenv \ virtualenv git clone https://github.com/kishwarshafin/pepper.git cd pepper make make build make install
I do see
pepper
andpepper_variant
:$ cd venv/bin/ $ ./pepper --version PEPPER VERSION: 0.8.0 $ ./pepper_variant --version PEPPER VERSION: 0.8.0
But I cannot find the binary
run_pepper_margin_deepvariant
described in your README to run variant calling. Is there anything special that I need to do to install it?The text was updated successfully, but these errors were encountered: