adding lrge version 0.1.3

Program_Licenses.md

@@ -96,6 +96,7 @@ The licenses of the open-source software that is contained in these Docker image
 | liftoff | GNU GPLv3 | https://github.com/agshumate/Liftoff/blob/master/LICENSE.md |
 | lima | BSD-3 | https://github.com/PacificBiosciences/barcoding/blob/master/LICENSE |
 | longshot | MIT | https://github.com/pjedge/longshot/blob/master/LICENSE |
+| lrge | MIT | https://github.com/mbhall88/lrge?tab=MIT-1-ov-file#readme |
 | Lyve-SET  | MIT | https://github.com/lskatz/lyve-SET/blob/master/LICENSE |
 | Mafft  | BSD | https://mafft.cbrc.jp/alignment/software/license.txt |
 | Mash | non-standard license (see link) | https://github.com/marbl/Mash/blob/master/LICENSE.txt |

README.md

@@ -205,6 +205,7 @@ To learn more about the docker pull rate limits and the open source software pro
 | [liftoff](https://hub.docker.com/r/staphb/liftoff/) <br/> [![docker pulls](https://badgen.net/docker/pulls/staphb/liftoff)](https://hub.docker.com/r/staphb/liftoff)| <ul><li>1.6.3</li></ul> | https://github.com/agshumate/Liftoff |
 | [lima](https://hub.docker.com/r/staphb/lima/) <br/> [![docker pulls](https://badgen.net/docker/pulls/staphb/lima)](https://hub.docker.com/r/staphb/lima)| <ul><li>[2.9.0](./lima/2.9.0/)</li><li>[2.9.0+Rscripts](./lima/2.9.0+Rscripts/)</li></ul> | https://github.com/PacificBiosciences/barcoding |
 | [longshot](https://hub.docker.com/r/staphb/longshot/) <br/> [![docker pulls](https://badgen.net/docker/pulls/staphb/longshot)](https://hub.docker.com/r/staphb/longshot)| <ul><li>[0.4.5](longshot/0.4.5)</li><li>[1.0.0](longshot/1.0.0/)</li></ul> | https://github.com/pjedge/longshot |
+| [lrge](https://hub.docker.com/r/staphb/lrge/) <br/> [![docker pulls](https://badgen.net/docker/pulls/staphb/lrge)](https://hub.docker.com/r/staphb/lrge)| <ul><li>[0.1.3](./lrge/0.1.3/)</li></ul> | https://github.com/mbhall88/lrge |
 | [Lyve-SET (includes CG-Pipeline scripts and raxml)](https://hub.docker.com/r/staphb/lyveset/) <br/> [![docker pulls](https://badgen.net/docker/pulls/staphb/lyveset)](https://hub.docker.com/r/staphb/lyveset) | <ul><li>1.1.4f</li><li>2.0.1</li></ul> | https://github.com/lskatz/lyve-SET https://github.com/lskatz/CG-Pipeline |
 | [MAFFT](https://hub.docker.com/r/staphb/mafft/) <br/> [![docker pulls](https://badgen.net/docker/pulls/staphb/mafft)](https://hub.docker.com/r/staphb/mafft)  | <ul><li>[7.450](./mafft/7.450/)</li><li>[7.475](./mafft/7.475/)</li><li>[7.505](./mafft/7.505/)</li><li>[7.520](./mafft/7.520/)</li><li>[7.526](./mafft/7.526/)</li></ul> | https://mafft.cbrc.jp/alignment/software/ |
 | [Mash](https://hub.docker.com/r/staphb/mash/) <br/> [![docker pulls](https://badgen.net/docker/pulls/staphb/mash)](https://hub.docker.com/r/staphb/mash)  | <ul><li>2.1</li><li>2.2</li><li>2.3</li></ul> | https://github.com/marbl/Mash |

lrge/0.1.3/Dockerfile

@@ -0,0 +1,45 @@
+ARG LRGE_VER="0.1.3"
+
+FROM ubuntu:jammy AS app
+
+ARG LRGE_VER
+
+# 'LABEL' instructions tag the image with metadata that might be important to the user
+LABEL base.image="ubuntu:jammy"
+LABEL dockerfile.version="1"
+LABEL software="lrge"
+LABEL software.version="${LRGE_VER}"
+LABEL description="Long Read-based Genome size Estimation from overlaps"
+LABEL website="https://github.com/mbhall88/lrge"
+LABEL license="https://github.com/mbhall88/lrge/blob/main/LICENSE"
+LABEL maintainer="Erin Young"
+LABEL maintainer.email="[email protected]"
+
+# 'RUN' executes code during the build
+# Install dependencies via apt-get or yum if using a centos or fedora base
+RUN apt-get update && apt-get install -y --no-install-recommends \
+    wget \
+    ca-certificates && \
+    apt-get autoclean && rm -rf /var/lib/apt/lists/*
+
+RUN wget -q https://github.com/mbhall88/lrge/releases/download/lrge-${LRGE_VER}/lrge-${LRGE_VER}-x86_64-unknown-linux-gnu.tar.gz && \
+    tar -xvf lrge-${LRGE_VER}-x86_64-unknown-linux-gnu.tar.gz && \
+    mv lrge-${LRGE_VER}-x86_64-unknown-linux-gnu/lrge /usr/local/bin && \
+    rm -rf lrge-${LRGE_VER}-x86_64-unknown-linux-gnu.tar.gz lrge-0.1.3-x86_64-unknown-linux-gnu
+
+# 'CMD' instructions set a default command when the container is run. This is typically 'tool --help.'
+CMD [ "lrge", "--help" ]
+
+WORKDIR /data
+
+FROM app AS test
+
+# set working directory so that all test inputs & outputs are kept in /test
+WORKDIR /test
+
+RUN lrge --help && lrge --version
+
+# stolen from https://github.com/mbhall88/lrge
+RUN wget -q -O reads.fq.gz "ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR283/049/SRR28370649/SRR28370649_1.fastq.gz" && \
+    lrge -t 8 reads.fq.gz -o results.txt && \
+    head results.txt

lrge/0.1.3/README.md

@@ -0,0 +1,20 @@
+# lrge container
+
+Main tool: [lrge](https://github.com/mbhall88/lrge)
+
+Code repository: https://github.com/mbhall88/lrge
+
+Basic information on how to use this tool:
+- executable: lrge
+- help: -h
+- version: -v
+- description: |
+> Long Read-based Genome size Estimation from overlaps for nanopore/ONT reads
+
+Full documentation: https://github.com/mbhall88/lrge
+
+## Example Usage
+
+```bash
+lrge -t 8 reads.fq.gz -o size.txt
+```