Mercurial > repos > galaxyp > eggnog_mapper

view test-data/make_comp_file.sh @ 1:3c7c9396daaa draft

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planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/eggnog_mapper commit 9505f2a447df1bcd46ceca7b5ddb532a2f8a1cd1
author galaxyp
date Tue, 31 Oct 2017 16:04:14 -0400
parents f4e5279b5d10
children 3cb37af59360
line wrap: on
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#!/bin/bash

base_path=$1

emapper.py \
    -i $base_path/test-data/nlim_fragment.fasta \
    --output HMM_nlim \
    --output_dir $base_path/test-data \
    --override \
    --database $base_path/test-data/cached_locally/hmmdb_levels/ENOG411CB2I/ENOG411CB2I \
    --data_dir $base_path/test-data/cached_locally \
    --no_refine\
    --no_annot \
    --no_file_comments

emapper.py \
    -i $base_path/test-data/nlim_fragment.fasta \
    --output DIA_nlim \
    --output_dir $base_path/test-data \
    --override \
    -m diamond \
    --data_dir $base_path/test-data/cached_locally \
    --no_file_comments \
    --no_annot