Mercurial > repos > davidvanzessen > shm_csr

comparison wrapper.sh @ 94:84e9e5c8c101 draft

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"planemo upload commit d4be85014b638f1d50b318d4b735be7f6e973140"
author rhpvorderman
date Fri, 24 Mar 2023 16:58:28 +0000
parents 8fcf31272f6e
children d63eff357515
comparison
equal deleted inserted replaced
93:8fcf31272f6e 94:84e9e5c8c101
14 naive_output_ca=${10} 14 naive_output_ca=${10}
15 naive_output_cg=${11} 15 naive_output_cg=${11}
16 naive_output_cm=${12} 16 naive_output_cm=${12}
17 naive_output_ce=${13} 17 naive_output_ce=${13}
18 naive_output_all=${14} 18 naive_output_all=${14}
19 filter_unique=${15} 19 naive_output_igm_naive=${15}
20 filter_unique_count=${16} 20 naive_output_igm_naive_memory=${16}
21 class_filter=${17} 21 filter_unique=${17}
22 empty_region_filter=${18} 22 filter_unique_count=${18}
23 fast=${19} 23 class_filter=${19}
24 empty_region_filter=${20}
25 fast=${21}
24 26
25 BASENAME=$(basename $input) 27 BASENAME=$(basename $input)
26 # Cut off .txz or .tgz suffix 28 # Cut off .txz or .tgz suffix
27 NEW_IMGT_PREFIX="new_IMGT_${BASENAME%.*}" 29 NEW_IMGT_PREFIX="new_IMGT_${BASENAME%.*}"
28 30
820 echo "copy for classes" 822 echo "copy for classes"
821 cp $outdir/${NEW_IMGT_PREFIX}_IGA.txz ${naive_output_ca} 823 cp $outdir/${NEW_IMGT_PREFIX}_IGA.txz ${naive_output_ca}
822 cp $outdir/${NEW_IMGT_PREFIX}_IGG.txz ${naive_output_cg} 824 cp $outdir/${NEW_IMGT_PREFIX}_IGG.txz ${naive_output_cg}
823 cp $outdir/${NEW_IMGT_PREFIX}_IGM.txz ${naive_output_cm} 825 cp $outdir/${NEW_IMGT_PREFIX}_IGM.txz ${naive_output_cm}
824 cp $outdir/${NEW_IMGT_PREFIX}_IGE.txz ${naive_output_ce} 826 cp $outdir/${NEW_IMGT_PREFIX}_IGE.txz ${naive_output_ce}
827 cp $outdir/${NEW_IMGT_PREFIX}_IGM_NAIVE.txz ${naive_output_igm_naive}
828 cp $outdir/${NEW_IMGT_PREFIX}_IGM_NAIVE_MEMORY.txz ${naive_output_igm_naive_memory}
825 fi 829 fi
826 fi 830 fi
827 831
828 echo "</table>" >> $outdir/base_overview.html 832 echo "</table>" >> $outdir/base_overview.html
829 833