From cd967e5d0a4979b38b910a3d78588a48b8e06560 Mon Sep 17 00:00:00 2001
From: MillironX <25492070+MillironX@users.noreply.github.com>
Date: Tue, 10 Aug 2021 18:22:58 -0500
Subject: [PATCH] Remove Sniffles

---
 sniffles/README.md    | 19 -------------
 sniffles/sniffles.def | 63 -------------------------------------------
 2 files changed, 82 deletions(-)
 delete mode 100644 sniffles/README.md
 delete mode 100644 sniffles/sniffles.def

diff --git a/sniffles/README.md b/sniffles/README.md
deleted file mode 100644
index c825b4f..0000000
--- a/sniffles/README.md
+++ /dev/null
@@ -1,19 +0,0 @@
-# Sniffles
-
-[![Container source](https://img.shields.io/static/v1?label=Container%20Source&message=GitHub&color=lightgrey&logo=github&style=flat-square)](https://github.com/MillironX/singularity-builds/tree/master/sniffles)
-[![Sniffles source](https://img.shields.io/static/v1?label=Sniffles%20Source&message=GitHub&color=lightgrey&logo=github&style=flat-square)](https://github.com/fritzsedlazeck/Sniffles)
-[![Version 1.0.12b](https://img.shields.io/static/v1?label=Latest%20version&message=v1.0.12b&color=yellowgreen&logo=linuxcontainers&style=flat-square)](https://cloud.sylabs.io/library/millironx/default/sniffles)
-[![Docs](https://img.shields.io/static/v1?label=Docs&message=wiki&color=blue&style=flat-square)](https://github.com/fritzsedlazeck/Sniffles/wiki)
-[![Debian base](https://img.shields.io/static/v1?label=Base%20image&message=Debian&color=a80030&logo=debian&style=flat-square)](https://www.debian.org/)
-
-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.
-
-## Tools installed
-
-### Sniffles
-
-- `sniffles`
-- `sniffles-debug`
diff --git a/sniffles/sniffles.def b/sniffles/sniffles.def
deleted file mode 100644
index cddc7e2..0000000
--- a/sniffles/sniffles.def
+++ /dev/null
@@ -1,63 +0,0 @@
-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
-  - <https://github.com/fritzsedlazeck/Sniffles>
-  - <https://github.com/MillironX/singularity-builds>