Bootstrap: library From: default/debian:buster %post # Declare version variable export SNIFFLES_VERSION='1.0.12' export SNIFFLES_TAG="v${SNIFFLES_VERSION}b" # Install dependencies apt-get update apt-get install -y --no-install-recommends \ git cmake make gcc g++ libghc-zlib-dev bash procps build-essential # Get Sniffles cd /opt || exit 1 git config --global http.sslverify false git clone https://github.com/fritzsedlazeck/Sniffles.git cd Sniffles || exit 1 git checkout $SNIFFLES_TAG # Build Sniffles mkdir build && cd build || exit 1 cmake .. -DCMAKE_BUILD_TYPE=Release -DCMAKE_INSTALL_PREFIX=/usr/local make # Install Sniffles cd ../bin/sniffles-core-$SNIFFLES_VERSION || exit 1 install -D -m 0755 sniffles -t /usr/local/bin install -D -m 0755 sniffles-debug -t /usr/local/bin # Cleanup repo cd ../.. || exit 1 rm -rf Sniffles # Cleanup packages rm -rf /var/lib/apt/lists/* %test command -v bash command -v ps command -v sniffles command -v sniffles-debug %runscript sniffles "$@" %labels Author 25492070+MillironX@users.noreply.github.com SoftwareVersion v1.0.12b SingularityDefinitionVersion 3 %help Sniffles ======== Sniffles is a structural variation caller using third generation sequencing (PacBio or Oxford Nanopore). It detects all types of SVs (10bp+) using evidence from split-read alignments, high-mismatch regions, and coverage analysis. For more help, see - -