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authorzsloan2015-03-27 20:28:51 +0000
committerzsloan2015-03-27 20:28:51 +0000
commitd0911a04958a04042da02a334ccc528dae79cc17 (patch)
tree3c48e2e937c1dbeaf00a5697c87ed251afa5c8f1 /web/webqtl/cmdLine/cmdIntervalMappingPage.py
parenta840ad18e1fe3db98a359a159e9b9b72367a2839 (diff)
downloadgenenetwork2-d0911a04958a04042da02a334ccc528dae79cc17.tar.gz
Removed everything from 'web' directory except genofiles and renamed the directory to 'genotype_files'
Diffstat (limited to 'web/webqtl/cmdLine/cmdIntervalMappingPage.py')
-rwxr-xr-xweb/webqtl/cmdLine/cmdIntervalMappingPage.py75
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
-