Merge branch 'master' into lmm

1 files changed, 0 insertions, 75 deletions

diff --git a/web/webqtl/cmdLine/cmdIntervalMappingPage.py b/web/webqtl/cmdLine/cmdIntervalMappingPage.py
deleted file mode 100755
index 8e0a3d92..00000000
--- a/web/webqtl/cmdLine/cmdIntervalMappingPage.py
+++ /dev/null
@@ -1,75 +0,0 @@
-# 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 os
-
-from base import webqtlConfig
-from base.templatePage import templatePage
-from utility import webqtlUtil
-
-#########################################
-#      Interval Mapping Page
-#########################################
-
-class cmdIntervalMappingPage(templatePage):
-
-	def __init__(self,fd):
-
-		templatePage.__init__(self, fd)
-
-		wtext = "Mapping "
-		try:
-			selectedChr = int(fd.formdata.getvalue('chromosomes')) + 1
-			if selectedChr < 1:
-				raise "ValueError"
-			if selectedChr == 21 or (selectedChr == 20 and fd.RISet != 'HXBBXH'):
-				selectedChr = 'X'
-			wtext += 'chromosome %s ' % selectedChr
-		except:
-			wtext += 'whole genome '
-
-		perm = 0
-		if fd.formdata.getvalue('permCheck'):
-			perm = 1
-			wtext += 'with %d permutation tests ' % fd.nperm
-
-		boot = 0
-		if fd.formdata.getvalue('bootCheck'):
-			boot = 1
-			if perm:
-				wtext += 'and %d bootstrap tests ' % fd.nboot
-			else:
-				wtext += 'with %d bootstrap tests ' % fd.nboot
-		
-		if boot == 0 and perm == 0:
-			wtext +=  "without permutation or bootstrap tests"
-		
-		filename = self.session("Interval Mapping", wtext)
-		webqtlUtil.dump_session(fd, os.path.join(webqtlConfig.TMPDIR, filename +'.session'))
-		url = webqtlConfig.REFRESHDIR  %  (webqtlConfig.CGIDIR, self.filename)
-		os.system("%s %swebqtlCmdLine.py interval %s >/dev/null 2>&1 &" % (webqtlConfig.PythonPath, webqtlConfig.CMDLINEDIR, filename))
-		self.redirection = url
-