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planemo upload for repository https://github.com/richard-burhans/galaxytools/tree/main/tools/ncbi_egapx commit d5c4a9faa18df570d02ce208d301a160d8555f58
author richard-burhans
date Sat, 16 Nov 2024 14:48:29 +0000
parents 5bec47dfe99a
children
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# This is a very minimal example of EGAPx, it fits into 4 CPU cores and 6GB of memory.
# To be able to do this, we culled the input files and some stages of execution.
# To limit the requirements you also need to use -e docker_minimal

genome: https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/020/809/275/GCF_020809275.1_ASM2080927v1/GCF_020809275.1_ASM2080927v1_genomic.fna.gz
taxid: 6954
reads:
  - https://ftp.ncbi.nlm.nih.gov/genomes/TOOLS/EGAP/sample_data/Dermatophagoides_farinae_small/SRR8506572.1
  - https://ftp.ncbi.nlm.nih.gov/genomes/TOOLS/EGAP/sample_data/Dermatophagoides_farinae_small/SRR8506572.2
  - https://ftp.ncbi.nlm.nih.gov/genomes/TOOLS/EGAP/sample_data/Dermatophagoides_farinae_small/SRR9005248.1
  - https://ftp.ncbi.nlm.nih.gov/genomes/TOOLS/EGAP/sample_data/Dermatophagoides_farinae_small/SRR9005248.2
hmm: https://ftp.ncbi.nlm.nih.gov/genomes/TOOLS/EGAP/gnomon/hmm_parameters/6956.params
tasks:
  star_wnode:
    star_wnode: -cpus-per-worker 4