73 lines
1.7 KiB
Tcsh
73 lines
1.7 KiB
Tcsh
#! /bin/csh -f
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#
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# script to make an accession number index for the genbank library
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#
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# NOTE only active for primate file
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#
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echo "genbaccession.script Version 1.1"
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echo ""
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#set RM = "/bin/rm -f"
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set RM = "echo /bin/rm -f"
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set SORT = "sort -T tmp"
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#
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#
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#
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genbaccess1 gbpri.seq gbpri.list
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if ( $status ) goto abort
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genbaccess1 gbrod.seq gbrod.list
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if ( $status ) goto abort
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genbaccess1 gbmam.seq gbmam.list
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if ( $status ) goto abort
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genbaccess1 gbvrt.seq gbvrt.list
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if ( $status ) goto abort
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genbaccess1 gbinv.seq gbinv.list
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if ( $status ) goto abort
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genbaccess1 gbpln.seq gbpln.list
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if ( $status ) goto abort
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genbaccess1 gborg.seq gborg.list
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if ( $status ) goto abort
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genbaccess1 gbbct.seq gbbct.list
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if ( $status ) goto abort
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genbaccess1 gbrna.seq gbrna.list
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if ( $status ) goto abort
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genbaccess1 gbvrl.seq gbvrl.list
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if ( $status ) goto abort
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genbaccess1 gbphg.seq gbphg.list
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if ( $status ) goto abort
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genbaccess1 gbsyn.seq gbsyn.list
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if ( $status ) goto abort
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genbaccess1 gbuna.seq gbuna.list
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if ( $status ) goto abort
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${SORT} gbpri.list gbrod.list gbmam.list gbvrt.list gbinv.list gbpln.list gborg.list gbbct.list gbrna.list gbvrl.list gbphg.list gbsyn.list gbuna.list >! access.sorted
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if ( $status ) goto abort
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${RM} gbpri.list gbrod.list gbmam.list gbvrt.list gbinv.list gbpln.list gborg.list gbbct.list gbrna.list gbvrl.list gbphg.list gbsyn.list gbuna.list
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access2 access.sorted access.entry
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if ( $status ) goto abort
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${RM} access.sorted
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${SORT} -b +1 access.entry >! access.sorted2
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if ( $status ) goto abort
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${RM} access.entry
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access4 access.sorted2 acnum.trg acnum.hit
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if ( $status ) goto abort
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${RM} access.sorted2
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echo "Completion successful"
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echo ""
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exit 0
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#
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# Abort
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#
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abort:
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echo "genbaccession.script: aborting due to serious error"
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exit 2
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