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comparison wrapper.sh @ 28:c0ecc31829bd draft

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Uploaded
author davidvanzessen
date Wed, 07 Dec 2016 08:17:09 -0500
parents ce25fb581ca3
children 80c4eebf7bc9
comparison
equal deleted inserted replaced
27:69baebd10e54 28:c0ecc31829bd
8 output="$outdir/index.html" #copied to $log location at the end 8 output="$outdir/index.html" #copied to $log location at the end
9 title=$5 9 title=$5
10 include_fr1=$6 10 include_fr1=$6
11 functionality=$7 11 functionality=$7
12 unique=$8 12 unique=$8
13 naive_output_ca=$9 13 naive_output=$9
14 naive_output_cg=${10} 14 naive_output_ca=${10}
15 naive_output_cm=${11} 15 naive_output_cg=${11}
16 naive_output_ce=${12} 16 naive_output_cm=${12}
17 naive_output_all=${13} 17 naive_output_ce=${13}
18 filter_unique=${14} 18 naive_output_all=${14}
19 class_filter=${15} 19 filter_unique=${15}
20 empty_region_filter=${16} 20 class_filter=${16}
21 fast=${17} 21 empty_region_filter=${17}
22 fast=${18}
22 mkdir $outdir 23 mkdir $outdir
23 24
24 tar -xzf $dir/style.tar.gz -C $outdir 25 tar -xzf $dir/style.tar.gz -C $outdir
25 26
26 echo "---------------- read parameters ----------------" 27 echo "---------------- read parameters ----------------"
699 echo "---------------- naive_output.r ----------------" 700 echo "---------------- naive_output.r ----------------"
700 echo "---------------- naive_output.r ----------------<br />" >> $log 701 echo "---------------- naive_output.r ----------------<br />" >> $log
701 702
702 if [[ "$naive_output" == "yes" ]] 703 if [[ "$naive_output" == "yes" ]]
703 then 704 then
705 echo "output naive output"
704 if [[ "${class_filter}" == "101_101" ]] 706 if [[ "${class_filter}" == "101_101" ]]
705 then 707 then
708 echo "copy new_IMGT.txz to ${naive_output_all}"
706 cp $outdir/new_IMGT.txz ${naive_output_all} 709 cp $outdir/new_IMGT.txz ${naive_output_all}
707 else 710 else
711 echo "copy for classes"
708 cp $outdir/new_IMGT_IGA.txz ${naive_output_ca} 712 cp $outdir/new_IMGT_IGA.txz ${naive_output_ca}
709 cp $outdir/new_IMGT_IGG.txz ${naive_output_cg} 713 cp $outdir/new_IMGT_IGG.txz ${naive_output_cg}
710 cp $outdir/new_IMGT_IGM.txz ${naive_output_cm} 714 cp $outdir/new_IMGT_IGM.txz ${naive_output_cm}
711 cp $outdir/new_IMGT_IGE.txz ${naive_output_ce} 715 cp $outdir/new_IMGT_IGE.txz ${naive_output_ce}
712 fi 716 fi