Mercurial > repos > greg > gene_family_classifier

comparison gene_family_classifier.xml @ 50:a3b7f34ad3f7 draft

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Uploaded
author greg
date Wed, 08 Feb 2017 11:17:10 -0500
parents 539a92a13168
children 3b2d35b75268
comparison
equal deleted inserted replaced
49:539a92a13168 50:a3b7f34ad3f7
94 #if $create_corresponding_coding_sequences: 94 #if $create_corresponding_coding_sequences:
95 && ls -l $orthogroups_fasta_src_dir | grep f | awk -F ' ' '{print $5"\t"$9}' > $output_ptcgfcs 95 && ls -l $orthogroups_fasta_src_dir | grep f | awk -F ' ' '{print $5"\t"$9}' > $output_ptcgfcs
96 #else: 96 #else:
97 && ls -l $orthogroups_fasta_src_dir | grep f | awk -F ' ' '{print $5"\t"$9}' > $output_ptcgf 97 && ls -l $orthogroups_fasta_src_dir | grep f | awk -F ' ' '{print $5"\t"$9}' > $output_ptcgf
98 #end if 98 #end if
99 && mv $orthogroups_fasta_src_dir/* $orthogroups_fasta_dest_dir || true 99 #if $os.path.exists($orthogroups_fasta_src_dir) and len($os.listdir($orthogroups_fasta_src_dir)) > 0:
100 && mv $orthogroups_fasta_src_dir/* $orthogroups_fasta_dest_dir
101 #end if
100 #end if 102 #end if
101 103
102 #if $single_copy_orthogroup: 104 #if $single_copy_orthogroup:
103 && ls -l $single_copy_fasta_src_dir | grep f | awk -F ' ' '{print $5"\t"$9}' > $output_ptsco 105 && ls -l $single_copy_fasta_src_dir | grep f | awk -F ' ' '{print $5"\t"$9}' > $output_ptsco
104 #if len($os.listdir($single_copy_fasta_src_dir)) > 0: 106 #if $os.path.exists($single_copy_fasta_src_dir) and len($os.listdir($single_copy_fasta_src_dir)) > 0:
105 && mv $single_copy_fasta_src_dir/* $single_copy_fasta_dest_dir || true 107 && mv $single_copy_fasta_src_dir/* $single_copy_fasta_dest_dir
106 #end if 108 #end if
107 #end if 109 #end if
108 ]]> 110 ]]>
109 </command> 111 </command>
110 <inputs> 112 <inputs>