Mercurial > repos > greg > gene_family_classifier

comparison gene_family_classifier.xml @ 66:7525307aa1d7 draft

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Uploaded
author greg
date Thu, 09 Feb 2017 13:37:40 -0500
parents 774c1ad296e7
children 062883e3392c
comparison
equal deleted inserted replaced
65:774c1ad296e7 66:7525307aa1d7
104 #end if 104 #end if
105 #end if 105 #end if
106 106
107 #if $create_ortho_sequences: 107 #if $create_ortho_sequences:
108 #if $create_corresponding_coding_sequences: 108 #if $create_corresponding_coding_sequences:
109 && echo "#Size\tName" > $output_ptorthocs 109 && echo -e "#Size\tName" > $output_ptorthocs
110 && ls -l $orthogroups_fasta_src_dir | grep f | awk -F ' ' '{print $5"\t"$9}' >> $output_ptorthocs 110 && ls -l $orthogroups_fasta_src_dir | grep f | awk -F ' ' '{print $5"\t"$9}' >> $output_ptorthocs
111 #else: 111 #else:
112 && echo "#Size\tName" > $output_ptortho 112 && echo -e "#Size\tName" > $output_ptortho
113 && ls -l $orthogroups_fasta_src_dir | grep f | awk -F ' ' '{print $5"\t"$9}' >> $output_ptortho 113 && ls -l $orthogroups_fasta_src_dir | grep f | awk -F ' ' '{print $5"\t"$9}' >> $output_ptortho
114 #end if 114 #end if
115 && mv $orthogroups_fasta_src_dir/* $orthogroups_fasta_dest_dir 115 && mv $orthogroups_fasta_src_dir/* $orthogroups_fasta_dest_dir
116 #end if 116 #end if
117 117
118 #if $single_copy_orthogroup: 118 #if $single_copy_orthogroup:
119 #if $create_ortho_sequences: 119 #if $create_ortho_sequences:
120 && echo "#Size\tName" > $output_ptsco 120 && echo -e "#Size\tName" > $output_ptsco
121 && ls -l $single_copy_fasta_src_dir | grep f | awk -F ' ' '{print $5"\t"$9}' >> $output_ptsco 121 && ls -l $single_copy_fasta_src_dir | grep f | awk -F ' ' '{print $5"\t"$9}' >> $output_ptsco
122 && mv $single_copy_fasta_src_dir/* $single_copy_fasta_dest_dir 122 && mv $single_copy_fasta_src_dir/* $single_copy_fasta_dest_dir
123 #end if 123 #end if
124 #end if 124 #end if
125 ]]> 125 ]]>