adding multiqc 1.22.2 (#907)

* adding multiqc 1.21

* Update to 1.22

* Update to 1.22

* Rename README.md for 1.22

* Update README.md for 1.22.1

* Update to 1.22.1

* Rename README.md to README.md

* Update README for multiqc 1.22.2

* Rename README.md to README.md

* Update to 1.22.2 and remove pandoc

* removing more things from apt-get

* Update Dockerfile

update website and license
remove ARG debian interactive
add --no-cache-dir to pip
remove  redundant PATH=$PATH

* Update README.md

---------

Co-authored-by: Kutluhan Incekara <46578029+Kincekara@users.noreply.github.com>

README.md

@@ -203,7 +203,7 @@ To learn more about the docker pull rate limits and the open source software pro
 | [minipolish](https://hub.docker.com/r/staphb/minipolish) <br/> [![docker pulls](https://badgen.net/docker/pulls/staphb/minipolish)](https://hub.docker.com/r/staphb/minipolish) | <ul><li>0.1.3</li></ul> | https://github.com/rrwick/Minipolish |
 | [mlst](https://hub.docker.com/r/staphb/mlst) <br/> [![docker pulls](https://badgen.net/docker/pulls/staphb/mlst)](https://hub.docker.com/r/staphb/mlst) | <ul><li>2.16.2</li><li>2.17.6</li><li>2.19.0</li><li>2.22.0</li><li>2.22.1</li><li>2.23.0</li><li>[2.23.0-2023-07 (databases updated July 2023)](mlst/2.23.0-2023-07/)</li><li>[2.23.0-2023-08 (databases updated Aug 2023)](mlst/2.23.0-2023-08/)</li><li>[2.23.0-2024-01 (databases updated Jan 2024)](mlst/2.23.0-2024-01/)</li><li>[2.23.0-2024-03 (databases updated March 2024)](mlst/2.23.0-2024-03/)</li></ul> | https://github.com/tseemann/mlst |
 | [Mugsy](https://hub.docker.com/r/staphb/mugsy) <br/> [![docker pulls](https://badgen.net/docker/pulls/staphb/mugsy)](https://hub.docker.com/r/staphb/mugsy) | <ul><li>1r2.3</li></ul> | http://mugsy.sourceforge.net/ |
-| [MultiQC](https://hub.docker.com/r/staphb/multiqc) <br/> [![docker pulls](https://badgen.net/docker/pulls/staphb/multiqc)](https://hub.docker.com/r/staphb/multiqc) | <ul><li>1.7</li><li>[1.8](./multiqc/1.8/)</li><li>[1.18](./multiqc/1.18/)</li><li>[1.19](./multiqc/1.19/)</li></ul> | https://github.com/ewels/MultiQC |
+| [MultiQC](https://hub.docker.com/r/staphb/multiqc) <br/> [![docker pulls](https://badgen.net/docker/pulls/staphb/multiqc)](https://hub.docker.com/r/staphb/multiqc) | <ul><li>[1.7](./multiqc/1.7/)</li><li>[1.8](./multiqc/1.8/)</li><li>[1.18](./multiqc/1.18/)</li><li>[1.19](./multiqc/1.19/)</li><li>[1.22.2](./multiqc/1.22.2/)</li></ul> | https://github.com/MultiQC/MultiQC |
 | [Mummer](https://hub.docker.com/r/staphb/mummer) <br/> [![docker pulls](https://badgen.net/docker/pulls/staphb/mummer)](https://hub.docker.com/r/staphb/mummer) | <ul><li>4.0.0</li><li>4.0.0 + RGDv2</li><li>4.0.0 + RGDv2 + gnuplot</li></ul> | https://github.com/mummer4/mummer |
 | [Mykrobe + Genotyphi + sonneityping](https://hub.docker.com/r/staphb/mykrobe) <br/> [![docker pulls](https://badgen.net/docker/pulls/staphb/mykrobe)](https://hub.docker.com/r/staphb/mykrobe) | <ul><li>0.11.0 (Mykrobe) & 1.9.1 (Genotyphi) </li><li>0.12.1 (Mykrobe) & 1.9.1 (Genotyphi) & v20210201 (sonneityping) </li><li>0.12.1 (Mykrobe) & 2.0 (Genotyphi) & v20210201 (sonneityping) </li><li>[0.12.2 (Mykrobe) & 2.0 (Genotyphi) & v20210201 (sonneityping)](mykrobe/0.12.2/)</li><li>[0.13.0](./mykrobe/0.13.0)</li></ul> | https://github.com/Mykrobe-tools/mykrobe <br/> https://github.com/typhoidgenomics/genotyphi <br/> https://github.com/katholt/sonneityping |
 | [NanoPlot](https://hub.docker.com/r/staphb/nanoplot) <br/> [![docker pulls](https://badgen.net/docker/pulls/staphb/nanoplot)](https://hub.docker.com/r/staphb/nanoplot) | <ul><li>[1.27.0](./nanoplot/1.27.0/)</li><li>[1.29.0](./nanoplot/1.29.0/)</li><li>[1.30.1](./nanoplot/1.30.1/)</li><li>[1.32.0](./nanoplot/1.32.0/)</li><li>[1.33.0](./nanoplot/1.33.0/)</li><li>[1.40.0](./nanoplot/1.40.0/)</li><li>[1.41.6](./nanoplot/1.41.6/)</li><li>[1.42.0](./nanoplot/1.42.0/)</li></ul> | https://github.com/wdecoster/NanoPlot |

multiqc/1.22.2/Dockerfile

@@ -0,0 +1,48 @@
+FROM ubuntu:jammy as app
+
+ARG MULTIQC_VER="1.22.2"
+
+# metadata
+LABEL base.image="ubuntu:jammy"
+LABEL dockerfile.version="1"
+LABEL software="MultiQC"
+LABEL software.version="${MULTIQC_VER}"
+LABEL description="Aggregate bioinformatics results across many samples into a single report."
+LABEL website="https://github.com/MultiQC/MultiQC"
+LABEL license="https://github.com/MultiQC/MultiQC/blob/main/LICENSE"
+LABEL maintainer="Erin Young"
+LABEL maintainer.email="eriny@utah.gov"
+
+RUN apt-get update && apt-get install --no-install-recommends -y \
+    python3-pip && \
+    apt-get clean && apt-get autoclean && rm -rf /var/lib/apt/lists/*
+
+# install multiqc
+RUN pip3 install --no-cache-dir "multiqc==${MULTIQC_VER}"
+
+ENV LC_ALL='C.UTF-8' \
+    LANG='C.UTF-8'
+
+CMD multiqc --help
+
+RUN mkdir /data
+WORKDIR /data
+
+# testing layer starts here
+FROM app as test
+
+# getting git
+RUN apt-get update && apt-get install -y git
+
+# to ensure multiqc is in PATH
+RUN multiqc --help
+
+# set working directory so that all test inputs & outputs are kept in /test
+RUN mkdir /test
+WORKDIR /test
+
+# getting multiqc test data
+RUN git clone https://github.com/ewels/MultiQC_TestData && \
+    multiqc . && \
+    ls multiqc_report.html 
+

multiqc/1.22.2/README.md

@@ -0,0 +1,13 @@
+# MultiQC container
+
+Main tool : [MultiQC](https://multiqc.info/)
+
+Aggregate results from bioinformatics analyses across many samples into a single report.
+
+Full documentation: [Docs] (https://multiqc.info/docs/)
+
+# Example Usage
+
+```
+multiqc -f --cl_config "prokka_fn_snames: True"  .
+```