Containerize

[KMcC73]

HPC modules load for current Nextflow pipeline are as follows:
samtools/1.12, [ ] bwa/0.7.17, annovar/20200607, python/3.11.0 , Java lib files for Bambino-1.0.jar

Per Xun Zhu, above-mentioned dependencies can be installed via Conda without needing sudo permissions. Make sure all dependencies are managed by Conda

@wzhang42 has built a mirror clone in his personal Github https://github.com/wzhang42/Mitochondra_WGS_Nextflow_Pipeline

• Build custom Java library for Conda environment, Anaconda repository.
• Specify in Conda, then package into Docker/Singularity container