Mercurial > repos > greg > gene_family_classifier

comparison gene_family_classifier.xml @ 55:b45dd85b67cf draft

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Uploaded
author greg
date Thu, 09 Feb 2017 10:09:22 -0500
parents c6b874c29dbd
children b8a14639ead1
comparison
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54:c6b874c29dbd 55:b45dd85b67cf
102 #else: 102 #else:
103 && rm geneFamilyClassification_dir/hmmscan.log 103 && rm geneFamilyClassification_dir/hmmscan.log
104 #end if 104 #end if
105 #end if 105 #end if
106 106
107 && echo $create_ortho_sequences
108 && echo $orthogroups_fasta_src_dir
109 && echo $os.path.exists($orthogroups_fasta_src_dir)
110 && echo len($os.listdir($orthogroups_fasta_src_dir)) > 0:
111 && echo $create_corresponding_coding_sequences
112 && echo $orthogroups_fasta_dest_dir
113 && echo $single_copy_orthogroup
114 && echo $single_copy_fasta_src_dir
115 && echo len($os.listdir($single_copy_fasta_src_dir)) > 0
116
107 #if $create_ortho_sequences and $os.path.exists($orthogroups_fasta_src_dir) and len($os.listdir($orthogroups_fasta_src_dir)) > 0: 117 #if $create_ortho_sequences and $os.path.exists($orthogroups_fasta_src_dir) and len($os.listdir($orthogroups_fasta_src_dir)) > 0:
108 #if $create_corresponding_coding_sequences: 118 #if $create_corresponding_coding_sequences:
109 && ls -l $orthogroups_fasta_src_dir | grep f | awk -F ' ' '{print $5"\t"$9}' > $output_ptcgfcs 119 && ls -l $orthogroups_fasta_src_dir | grep f | awk -F ' ' '{print $5"\t"$9}' > $output_ptcgfcs
110 #else: 120 #else:
111 && ls -l $orthogroups_fasta_src_dir | grep f | awk -F ' ' '{print $5"\t"$9}' > $output_ptcgf 121 && ls -l $orthogroups_fasta_src_dir | grep f | awk -F ' ' '{print $5"\t"$9}' > $output_ptcgf