Mercurial > repos > jpayne > snp_pipeline
comparison 7_smp_matrix.xml @ 48:fc7a28de6aa0
planemo upload commit 2107f35724b3f897c9414be40a9d14663cba9f4d-dirty
author | jpayne |
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date | Wed, 08 May 2019 11:10:14 -0400 |
parents | 1667e4c08344 |
children | e90a783a4e8b |
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47:1667e4c08344 | 48:fc7a28de6aa0 |
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7 <requirement type="package" version="0.2.5">tabix</requirement> | 7 <requirement type="package" version="0.2.5">tabix</requirement> |
8 <requirement type="package" version="3.7.3">python</requirement> | 8 <requirement type="package" version="3.7.3">python</requirement> |
9 </requirements> | 9 </requirements> |
10 <command detect_errors="exit_code"><![CDATA[ | 10 <command detect_errors="exit_code"><![CDATA[ |
11 export LD_LIBRARY_PATH="\$CONDA_DEFAULT_ENV/lib" && | 11 export LD_LIBRARY_PATH="\$CONDA_DEFAULT_ENV/lib" && |
12 # env && | |
13 python $__tool_directory__/snp-wind.py ./ -p "consensus.fasta" | 12 python $__tool_directory__/snp-wind.py ./ -p "consensus.fasta" |
14 #for $fa in sorted($cons, key=lambda f: f.element_identifier) | 13 #for $fa in sorted($cons, key=lambda f: f.element_identifier) |
15 -n $fa.element_identifier -f $fa | 14 -n $fa.element_identifier -f $fa |
16 #end for | 15 #end for |
17 > ./file && | 16 > ./file && |