Mercurial > repos > petrn > repeatexplorer
comparison repex_full_clustering.xml @ 4:0f9dfaada8ef draft
Uploaded
| author | petrn |
|---|---|
| date | Fri, 20 Dec 2019 12:32:17 +0000 |
| parents | 2d43ed150abe |
| children |
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| 3:8f7909cf86df | 4:0f9dfaada8ef |
|---|---|
| 32 <requirement type="package">r-rsqlite</requirement> | 32 <requirement type="package">r-rsqlite</requirement> |
| 33 <requirement type="package">r-rserve</requirement> | 33 <requirement type="package">r-rserve</requirement> |
| 34 <requirement type="package">bioconductor-biostrings</requirement> | 34 <requirement type="package">bioconductor-biostrings</requirement> |
| 35 </requirements> | 35 </requirements> |
| 36 <command > | 36 <command > |
| 37 make -C ${__tool_directory__}; | |
| 37 export PYTHONHASHSEED=0; | 38 export PYTHONHASHSEED=0; |
| 38 ${__tool_directory__}/seqclust --sample ${sample} --output_dir=tarean_output --logfile=${log} --cleanup $paired --taxon $taxon | 39 ${__tool_directory__}/seqclust --sample ${sample} --output_dir=tarean_output --logfile=${log} --cleanup $paired --taxon $taxon |
| 39 | 40 |
| 40 #if $advanced_options.advanced: | 41 #if $advanced_options.advanced: |
| 41 --mincl $advanced_options.size_threshold $advanced_options.keep_names $advanced_options.automatic_filtering -D $advanced_options.blastx.options_blastx | 42 --mincl $advanced_options.size_threshold $advanced_options.keep_names $advanced_options.automatic_filtering -D $advanced_options.blastx.options_blastx |