Mercurial > repos > richard-burhans > ncbi_egapx

view test-data/input.yaml @ 6:3a8a37414e56 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/richard-burhans/galaxytools/tree/main/tools/ncbi_egapx commit dd9fbbe3a5507753ed350e221632d49f0ad06799
author richard-burhans
date Wed, 11 Sep 2024 15:06:07 +0000
parents 4420dd857c41
children 5bec47dfe99a
line wrap: on
line source

# 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
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
taxid: 6954
proteins: []
hmm: https://ftp.ncbi.nlm.nih.gov/genomes/TOOLS/EGAP/gnomon/hmm_parameters/6956.params
tasks:
  star_wnode:
    star_wnode: -cpus-per-worker 4