Mercurial > repos > pjbriggs > amplicon_analysis_pipeline

comparison amplicon_analysis_pipeline.xml @ 45:4bfa62618f7c draft

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planemo upload for repository https://github.com/pjbriggs/Amplicon_analysis-galaxy commit 3dcfecb6c83d655529be44366d9e55913df9dffd
author pjbriggs
date Wed, 11 Dec 2019 13:45:05 +0000
parents 098ad1dd7760
children 8d5fe964f61f
comparison
equal deleted inserted replaced
44:213b5cdecb70 45:4bfa62618f7c
83 cp RESULTS/${pipeline_name}_${reference_database_name}/OTUs_count.txt "${otus_count_file}" && 83 cp RESULTS/${pipeline_name}_${reference_database_name}/OTUs_count.txt "${otus_count_file}" &&
84 cp RESULTS/${pipeline_name}_${reference_database_name}/table_summary.txt "${table_summary_file}" && 84 cp RESULTS/${pipeline_name}_${reference_database_name}/table_summary.txt "${table_summary_file}" &&
85 cp fastqc_quality_boxplots.html "${fastqc_quality_boxplots_html}" && 85 cp fastqc_quality_boxplots.html "${fastqc_quality_boxplots_html}" &&
86 86
87 ## OTU table heatmap 87 ## OTU table heatmap
88 cp RESULTS/${pipeline_name}_${reference_database_name}/Heatmap.pdf "${heatmap_otu_table_pdf}"" && 88 cp RESULTS/${pipeline_name}_${reference_database_name}/Heatmap.pdf "${heatmap_otu_table_pdf}" &&
89 89
90 ## HTML outputs 90 ## HTML outputs
91 91
92 ## Phylum genus barcharts 92 ## Phylum genus barcharts
93 mkdir $phylum_genus_dist_barcharts_html.files_path && 93 mkdir $phylum_genus_dist_barcharts_html.files_path &&