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comparison blockclust.xml @ 1:f5600b583d85 draft

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author rnateam
date Mon, 21 Oct 2013 11:25:02 -0400
parents 91fb7edca344
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0:91fb7edca344 1:f5600b583d85
24 $reject_bed.append("$blockclust_data_path/annotations/mm10/mm10.reject.bed") 24 $reject_bed.append("$blockclust_data_path/annotations/mm10/mm10.reject.bed")
25 #elif str($mode.reference) == "dm3": 25 #elif str($mode.reference) == "dm3":
26 $accept_bed.append("$blockclust_data_path/annotations/dm3/dm3.accept.bed") 26 $accept_bed.append("$blockclust_data_path/annotations/dm3/dm3.accept.bed")
27 $reject_bed.append("$blockclust_data_path/annotations/dm3/dm3.reject.bed") 27 $reject_bed.append("$blockclust_data_path/annotations/dm3/dm3.reject.bed")
28 #end if 28 #end if
29 BlockClustPipeLine.pl -m TEST -f SEQUENCE -c $blockclust_script_path/blockclust.config 29 BlockClustPipeLine.pl -m TEST -f SEQUENCE -c $blockclust_data_path/blockclust.config
30 -t $mode.input_bbo 30 -t $mode.input_bbo
31 -a #echo ''.join( $accept_bed ) 31 -a #echo ''.join( $accept_bed )
32 -r #echo ''.join( $reject_bed ) 32 -r #echo ''.join( $reject_bed )
33 -o $outputdir; 33 -o $outputdir;
34 cp #echo os.path.join($outputdir, 'mcl_clusters','all_clusters.bed')# $clusters; 34 cp #echo os.path.join($outputdir, 'mcl_clusters','all_clusters.bed')# $clusters;