From c216d996114c14d486eed3a648a0d4a56495587e Mon Sep 17 00:00:00 2001
From: guilhermesena1 <desenabr@usc.edu>
Date: Tue, 31 Aug 2021 19:48:33 -0700
Subject: [PATCH] adding abismal Dockerfile

---
 abismal/1.0.0/Dockerfile | 47 ++++++++++++++++++++++++++++++++++++++++
 1 file changed, 47 insertions(+)
 create mode 100644 abismal/1.0.0/Dockerfile

diff --git a/abismal/1.0.0/Dockerfile b/abismal/1.0.0/Dockerfile
new file mode 100644
index 00000000..a41d549d
--- /dev/null
+++ b/abismal/1.0.0/Dockerfile
@@ -0,0 +1,47 @@
+################## BASE IMAGE ######################
+
+FROM biocontainers/biocontainers:v1.1.0_cv2
+
+################## METADATA ######################
+
+LABEL base_image="biocontainers:v1.1.0_cv2"
+LABEL version="1"
+LABEL software="abismal"
+LABEL software.version="1.0.0"
+LABEL about.summary="abismal is a fast and memory-efficient mapper for short whole genome bisulfite sequencing reads"
+LABEL about.home="http://smithlabcode.github.io/abismal"
+LABEL about.documentation="http://smithlabcode.github.io/abismal"
+LABEL about.license_file="http://smithlabcode.github.io/abismal"
+LABEL about.license="GPL 3.0"
+LABEL extra.identifiers.biotools="abismal"
+LABEL about.tags="Genomics"
+LABEL extra.binaries="abismal"
+
+################## MAINTAINER ######################
+MAINTAINER Guilherme Sena <desenabr@usc.edu>
+
+################## INSTALLATION ######################
+ENV ZIP=abismal-1.0.0zip
+ENV URL=https://github.com/smithlabcode/abismal/releases/download/v1.0.0
+ENV FOLDER=abismal-1.0.0-linux-x86_64
+ENV DST=/home/biodocker/bin
+ENV ULOCAL=/usr/local/bin
+
+USER 0
+
+RUN wget $URL/$ZIP -O $DST/$ZIP && \
+    unzip $DST/$ZIP -d $DST && \
+    rm $DST/$ZIP && \
+    mv $DST/$FOLDER/* $DST && \
+    rmdir $DST/$FOLDER
+
+RUN apt update
+RUN apt install python3 -y
+
+RUN ln -s $DST/* $ULOCAL/
+
+USER biodocker
+
+WORKDIR /data
+
+# CMD ["abismal"]