sources/readseq/add.gdemenu

   1 #
   2 # dgg added new readseq formats, 29 dec 92
   3 #
   4
   5 item:Export Foreign Format
   6 itemmethod:readseq in1 -pipe -all -form=$FORMAT > $OUTPUTFILE
   7 itemhelp:readseq.help
   8
   9 arg:FORMAT
  10 argtype:choice_menu
  11 argchoice:GenBank:genbank
  12 argchoice:IG/Stanford:ig
  13 argchoice:NBRF:nbrf
  14 argchoice:EMBL:embl
  15 argchoice:GCG:gcg
  16 argchoice:DNA Strider:strider
  17 argchoice:Fitch:fitch
  18 argchoice:Pearson/Fasta:pearson
  19 argchoice:Zuker:zuker
  20 argchoice:Olsen:olsen
  21 argchoice:Phylip:phylip
  22 #argchoice:Phylip v3.2:phylip3.2
  23 argchoice:Plain text:raw
  24 argchoice:ASN.1:asn
  25 argchoice:PIR:pir
  26 argchoice:MSF:msf
  27 argchoice:PAUP:paup
  28 argchoice:Pretty:pretty -nametop -nameleft=3 -numright -nameright -numtop
  29
  30 arg:OUTPUTFILE
  31 argtype:text
  32 arglabel:Save as?
  33
  34 in:in1
  35 informat:genbank
  36
  37
  38 #
  39 #dgg addition for new readseq, 24 dec 92
  40 #
  41
  42 item:Pretty Print
  43 itemmethod:readseq in1 -p -a -f=pretty $NAMELEFT $NAMERIGHT $NUMTOP $NUMBOT $NUMLEFT $NUMRIGHT -col=$COLS -width=$WIDTH $MATCH $GAPC > in1.pretty; (textedit in1.pretty; /bin/rm -f in1 in1.pretty)&
  44 itemhelp:readseq.help
  45
  46 #nametop is bad !?
  47
  48 in:in1
  49 informat:genbank
  50
  51 arg:NAMETOP
  52 argtype:chooser
  53 arglabel:Names at top  ?
  54 argchoice:No:
  55 argchoice:Yes:-nametop
  56
  57 arg:NAMELEFT
  58 argtype:chooser
  59 arglabel:Names at left ?
  60 argchoice:No:
  61 argchoice:Yes:-nameleft
  62
  63 arg:NAMERIGHT
  64 argtype:chooser
  65 arglabel:Names at right?
  66 argchoice:Yes:-nameright
  67 argchoice:No:
  68
  69 arg:NUMTOP
  70 argtype:chooser
  71 arglabel:Numbers at top  ?
  72 argchoice:Yes:-numtop
  73 argchoice:No:
  74
  75 arg:NUMBOT
  76 argtype:chooser
  77 arglabel:Numbers at tail ?
  78 argchoice:No:
  79 argchoice:Yes:-numbot
  80
  81 arg:NUMLEFT
  82 argtype:chooser
  83 arglabel:Numbers at left ?
  84 argchoice:Yes:-numleft
  85 argchoice:No:
  86
  87 arg:NUMRIGHT
  88 argtype:chooser
  89 arglabel:Numbers at right?
  90 argchoice:Yes:-numright
  91 argchoice:No:
  92
  93 arg:MATCH
  94 argtype:chooser
  95 arglabel:Use match '.' for 2..n species?
  96 argchoice:No:
  97 argchoice:Yes:-match
  98
  99 arg:GAPC
 100 argtype:chooser
 101 arglabel:Count gap symbols?
 102 argchoice:No:
 103 argchoice:Yes:-gap
 104
 105 arg:WIDTH
 106 argtype:slider
 107 arglabel:Sequence width?
 108 argmin:10
 109 argmax:200
 110 argvalue:50
 111
 112 arg:COLS
 113 argtype:slider
 114 arglabel:Column spacers?
 115 argmin:0
 116 argmax:50
 117 argvalue:10
 118
 119
 120 ### pretty print insert end
 121 #
 122
 123