#------------------- GenBank XML ( 10/ 4/04) --------------------------
# 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: GenBank XML file from GI
itemmethod: python $BIRCH/script/flat2list.py in1 in1.nam; (leash -mn SHoundGetXMLSeqEntry -mpf in1.nam -of in1.xml; rm in1.nam; $WHERE) &
itemhelp:doc/dGDE/README.Leash

arg:WHERE
arglabel:WHERE TO SEND OUTPUT
argtype:chooser
# If GenBank file, read directly, otherwise, convert to GenBank.
# Need to fix Bluejay. Filename must be a fully qualified path.
#argchoice:Bluejay:(readseq -fXML -o=in1.xml in1.gen; bluejay file://in1.xml; rm in1.*)&
argchoice:Textedit window:($GDE_TEXTEDIT in1.xml;rm in1.*) &
argchoice:Output file:mv in1.xml $OUTFILE; echo ' SEQHOUND - GET completed'
argvalue:0

arg:OUTFILE
arglabel:Output file name
argtype:text

in:in1
informat:flat