Mercurial > repos > greg > gene_family_classifier
comparison gene_family_classifier.xml @ 88:aef4df6e8ee0 draft
Uploaded
author | greg |
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date | Thu, 23 Feb 2017 14:38:57 -0500 |
parents | 2cb2c3349c57 |
children | 81d1832bc0dc |
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87:2cb2c3349c57 | 88:aef4df6e8ee0 |
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114 #if $create_corresponding_coding_sequences: | 114 #if $create_corresponding_coding_sequences: |
115 #set out_file = $output_ptorthocs | 115 #set out_file = $output_ptorthocs |
116 #else: | 116 #else: |
117 #set out_file = $output_ptortho | 117 #set out_file = $output_ptortho |
118 #end if | 118 #end if |
119 && echo -e '<html>\n<head>\n<title>Galaxy - GeneFamilyClassifier Output</title>\n</head>\n<body>\n<p/>\n<ul>\n' > $out_file | 119 && echo -e "<html>\n<head>\n<title>Galaxy - GeneFamilyClassifier Output</title>\n</head>\n<body>\n<p/>\n<ul>\n" > $out_file |
120 #for $fname in $os.listdir($orthogroups_fasta_src_dir): | 120 #for $fname in $os.listdir($orthogroups_fasta_src_dir): |
121 && echo -e '<li><a href="$fname">$fname</a></li>\n' >> $out_file | 121 && echo -e "<li><a href=\"$fname\">$fname</a></li>\n" >> $out_file |
122 #end for | 122 #end for |
123 && echo -e '</ul>\n</body>\n</html>\n' >> $out_file | 123 && echo -e "</ul>\n</body>\n</html>\n" >> $out_file |
124 && mv $orthogroups_fasta_src_dir/* $orthogroups_fasta_dest_dir || true | 124 && mv $orthogroups_fasta_src_dir/* $orthogroups_fasta_dest_dir || true |
125 #end if | 125 #end if |
126 | 126 |
127 #if $single_copy_orthogroup: | 127 #if $single_copy_orthogroup: |
128 #if $create_ortho_sequences: | 128 #if $create_ortho_sequences: |
129 && echo -e '<html>\n<head>\n<title>Galaxy - GeneFamilyClassifier Output</title>\n</head>\n<body>\n<p/>\n<ul>\n' > $output_ptsco | 129 && echo -e "<html>\n<head>\n<title>Galaxy - GeneFamilyClassifier Output</title>\n</head>\n<body>\n<p/>\n<ul>\n" > $output_ptsco |
130 #for $fname in $os.listdir($single_copy_fasta_src_dir): | 130 #for $fname in $os.listdir($single_copy_fasta_src_dir): |
131 && echo -e '<li><a href="$fname">$fname</a></li>\n' >> $output_ptsco | 131 && echo -e "<li><a href=\"$fname\">$fname</a></li>\n" >> $output_ptsco |
132 #end for | 132 #end for |
133 && echo -e '</ul>\n</body>\n</html>\n' >> $output_ptsco | 133 && echo -e "</ul>\n</body>\n</html>\n" >> $output_ptsco |
134 && mv $single_copy_fasta_src_dir/* $single_copy_fasta_dest_dir || true | 134 && mv $single_copy_fasta_src_dir/* $single_copy_fasta_dest_dir || true |
135 #end if | 135 #end if |
136 #end if | 136 #end if |
137 ]]> | 137 ]]> |
138 </command> | 138 </command> |