Mercurial > repos > greg > phylogenomics_analysis

comparison phylogenomics_analysis.xml @ 63:c2d2ca6cf94b draft

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Uploaded
author greg
date Thu, 16 Feb 2017 10:21:36 -0500
parents 785eef1c4700
children 534604580eb5
comparison
equal deleted inserted replaced
62:785eef1c4700 63:c2d2ca6cf94b
129 && ls -l $src_fasta_dir | grep f | awk -F ' ' '{print $5"\t"$9}' >> $output_fasta_ptortho 129 && ls -l $src_fasta_dir | grep f | awk -F ' ' '{print $5"\t"$9}' >> $output_fasta_ptortho
130 #else: 130 #else:
131 && echo -e "#Size\tName" > $output_fasta_ptorthocs 131 && echo -e "#Size\tName" > $output_fasta_ptorthocs
132 && ls -l $src_fasta_dir | grep f | awk -F ' ' '{print $5"\t"$9}' >> $output_fasta_ptorthocs 132 && ls -l $src_fasta_dir | grep f | awk -F ' ' '{print $5"\t"$9}' >> $output_fasta_ptorthocs
133 #end if 133 #end if
134 && mv $src_fasta_dir/* $dest_fasta_dir 134 && mv $src_fasta_dir/* $dest_fasta_dir || true
135 135
136 #if $generate_output_aln: 136 #if $generate_output_aln:
137 && echo -e "#Size\tName" > $output_aln 137 && echo -e "#Size\tName" > $output_aln
138 && ls -l $src_aln_dir | grep f | awk -F ' ' '{print $5"\t"$9}' >> $output_aln 138 && ls -l $src_aln_dir | grep f | awk -F ' ' '{print $5"\t"$9}' >> $output_aln
139 && mv $src_aln_dir/* $dest_aln_dir 139 && mv $src_aln_dir/* $dest_aln_dir || true
140 #end if 140 #end if
141 141
142 #if $generate_output_tree: 142 #if $generate_output_tree:
143 && echo -e "#Size\tName" > $output_tree 143 && echo -e "#Size\tName" > $output_tree
144 && ls -l $src_tree_dir | grep f | awk -F ' ' '{print $5"\t"$9}' >> $output_tree 144 && ls -l $src_tree_dir | grep f | awk -F ' ' '{print $5"\t"$9}' >> $output_tree
145 && mv $src_tree_dir/* $dest_tree_dir 145 && mv $src_tree_dir/* $dest_tree_dir || true
146 #end if 146 #end if
147 ]]> 147 ]]>
148 </command> 148 </command>
149 <inputs> 149 <inputs>
150 <conditional name="input_format_cond"> 150 <conditional name="input_format_cond">