Mercurial > repos > greg > gene_family_classifier

comparison gene_family_classifier.xml @ 79:887abff6ee25 draft

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Uploaded
author greg
date Wed, 22 Feb 2017 09:11:57 -0500
parents 5de38d2ef87e
children f71d34c9e6fc
comparison
equal deleted inserted replaced
78:5de38d2ef87e 79:887abff6ee25
110 #end if 110 #end if
111 #end if 111 #end if
112 112
113 #if $create_ortho_sequences: 113 #if $create_ortho_sequences:
114 #if $create_corresponding_coding_sequences: 114 #if $create_corresponding_coding_sequences:
115 && echo -e "#Size\tName<br/>" > $output_ptorthocs 115 && echo -e "#Size\tName" > $output_ptorthocs
116 && ls -l $orthogroups_fasta_src_dir | grep f | awk -F ' ' '{print $5"\t<a href=\"$output_ptorthocs.extra_files_path/"$9"\">"$9"</a><br/>"}' >> $output_ptorthocs 116 && ls -l $orthogroups_fasta_src_dir | grep f | awk -F ' ' '{print $5"\t"$9}' >> $output_ptorthocs
117 #else: 117 #else:
118 && echo -e "#Size\tName" > $output_ptortho 118 && echo -e "#Size\tName" > $output_ptortho
119 && ls -l $orthogroups_fasta_src_dir | grep f | awk -F ' ' '{print $5"\t<a href=\"$output_ptortho.extra_files_path/"$9"\">"$9"</a><br/>"}' >> $output_ptortho 119 && ls -l $orthogroups_fasta_src_dir | grep f | awk -F ' ' '{print $5"\t"$9}' >> $output_ptortho
120 #end if 120 #end if
121 && mv $orthogroups_fasta_src_dir/* $orthogroups_fasta_dest_dir || true 121 && mv $orthogroups_fasta_src_dir/* $orthogroups_fasta_dest_dir || true
122 #end if 122 #end if
123 123
124 #if $single_copy_orthogroup: 124 #if $single_copy_orthogroup:
125 #if $create_ortho_sequences: 125 #if $create_ortho_sequences:
126 && echo -e "#Size\tName" > $output_ptsco 126 && echo -e "#Size\tName" > $output_ptsco
127 && ls -l $single_copy_fasta_src_dir | grep f | awk -F ' ' '{print $5"\t<a href=\"$output_ptsco.extra_files_path/"$9"\">"$9"</a><br/>"}' >> $output_ptsco 127 && ls -l $single_copy_fasta_src_dir | grep f | awk -F ' ' '{print $5"\t"$9}' >> $output_ptsco
128 && mv $single_copy_fasta_src_dir/* $single_copy_fasta_dest_dir || true 128 && mv $single_copy_fasta_src_dir/* $single_copy_fasta_dest_dir || true
129 #end if 129 #end if
130 #end if 130 #end if
131 ]]> 131 ]]>
132 </command> 132 </command>