Add all the source codes into the github.

1 files changed, 70 insertions, 0 deletions

diff --git a/web/webqtl/textUI/cmdSearchGene.py b/web/webqtl/textUI/cmdSearchGene.py
new file mode 100755
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+++ b/web/webqtl/textUI/cmdSearchGene.py
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+# Copyright (C) University of Tennessee Health Science Center, Memphis, TN.
+#
+# This program is free software: you can redistribute it and/or modify it
+# under the terms of the GNU Affero General Public License
+# as published by the Free Software Foundation, either version 3 of the
+# License, or (at your option) any later version.
+#
+# This program is distributed in the hope that it will be useful,
+# but WITHOUT ANY WARRANTY; without even the implied warranty of
+# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
+# See the GNU Affero General Public License for more details.
+#
+# This program is available from Source Forge: at GeneNetwork Project
+# (sourceforge.net/projects/genenetwork/).
+#
+# Contact Drs. Robert W. Williams and Xiaodong Zhou (2010)
+# at rwilliams@uthsc.edu and xzhou15@uthsc.edu
+#
+#
+#
+# This module is used by GeneNetwork project (www.genenetwork.org)
+#
+# Created by GeneNetwork Core Team 2010/08/10
+#
+# Last updated by GeneNetwork Core Team 2010/10/20
+
+import string
+
+from cmdClass import cmdClass
+from search.TextSearchPage import TextSearchPage
+
+######################################### 
+#      Search Gene Symbol PAGE
+#########################################
+class cmdSearchGene(cmdClass):
+	def __init__(self,fd):
+		#example
+		cmdClass.__init__(self,fd)
+		self.page = None
+		self.text = ""
+		fd.geneName = fd.formdata.getvalue('gene')
+		fd.returnFmt = fd.formdata.getvalue('format', 'html')
+		if fd.geneName:
+			fd.geneName = string.strip(fd.geneName)
+		fd.refseq = fd.formdata.getvalue('refseq')
+		if fd.refseq:
+			fd.refseq = string.strip(fd.refseq)
+		fd.genbankid = fd.formdata.getvalue('genbankid')
+		if fd.genbankid:
+			fd.genbankid = string.strip(fd.genbankid)
+		fd.geneid = fd.formdata.getvalue('geneid')
+		if fd.geneid:
+			fd.geneid = string.strip(fd.geneid)
+		if 1:
+			if not (fd.geneName or fd.refseq or fd.genbankid or fd.geneid):
+				raise "ValueError"
+			fd.searchAlias = fd.formdata.getvalue('alias')
+			if fd.searchAlias != '1':
+				fd.searchAlias = None
+			self.page = TextSearchPage(fd)
+			if fd.returnFmt != 'text':
+				pass
+			else:
+				self.text = self.page.output
+				self.page = None
+		elif "ValueError":
+			self.text = "You need to submit a Gene name, a Refseq ID, or a GenBank ID"
+		else:
+			self.text = "Error occurs while searching the database"
+