#------------------- DNA - GenBank ( 1/23/06) --------------------------
# Note: This menu requires the script SHound.fixGenBank.py. 
# SHoundGetGenBankffList omits '//' characters from the end
# of GenBank entries. Since these characters are required to
# indicate the end of an entry, SHound.fixGenBank.py adds them
# to the SHound output. When SHound is fixed, this script
# can be deleted.
item:DNA (GenBank) from GI
itemmethod: ($METHOD; python $BIRCH/script/SHound.fixGenBank.py in1.tmp in1.gen; rm in1.tmp; $WHERE) &
itemhelp:doc/dGDE/README.Leash

arg:METHOD
arglabel:Retrieval method
argtype:choice_menu
argchoice:SHoundGetGenBankffList (default,fast):python $BIRCH/script/flat2list.py in1 in1.list; leash -mn SHoundGetGenBankffList -mpf in1.list -of in1.tmp; rm in1 in1.list 
argchoice:SHoundGetGenBankff (slow,reliable):python $BIRCH/script/SHGetSeq.py in1 -f genbank in1.tmp
argvalue:0

arg:WHERE
arglabel:WHERE TO SEND OUTPUT
argtype:chooser
# If GenBank file, read directly, otherwise, convert to GenBank.
argchoice:GDE:(gde in1.gen; rm in1.*)&
argchoice:Textedit window:($GDE_TEXTEDIT in1.gen;rm in1.*) &
argchoice:Output file:mv in1.gen $OUTFILE; echo ' SEQHOUND - GET completed'
argvalue:0

arg:OUTFILE
arglabel:Output file name
argtype:text

in:in1
informat:flat
insave: