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Diffstat (limited to 'web/webqtl/submitTrait/BatchSubmitPage.py')
| -rwxr-xr-x | web/webqtl/submitTrait/BatchSubmitPage.py | 142 |
1 files changed, 142 insertions, 0 deletions
diff --git a/web/webqtl/submitTrait/BatchSubmitPage.py b/web/webqtl/submitTrait/BatchSubmitPage.py new file mode 100755 index 00000000..1c0be1ed --- /dev/null +++ b/web/webqtl/submitTrait/BatchSubmitPage.py @@ -0,0 +1,142 @@ +# 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 glob +from htmlgen import HTMLgen2 as HT +import os + +from base.templatePage import templatePage +from utility import webqtlUtil +from base import webqtlConfig + + +# XZ, 09/09/2008: From home, click "Batch Submission". +# XZ, 09/09/2008: This class generate what you see +######################################### +# BatchSubmitPage +######################################### + +class BatchSubmitPage(templatePage): + + def __init__(self, fd): + + templatePage.__init__(self, fd) + + self.dict['title'] = 'Batch Submission' + + TD_LEFT = """ + <TD vAlign=top width="40%" bgColor=#eeeeee> + <P class="title">Introduction</P> + <BLOCKQUOTE> + <P>The batch submission utility enables users to submit multiple + traits at the same time for analysis by the GeneNetwork and + WebQTL. The data will be stored on our server for no more than + 24 hours. None of the submitted data are stored or copied + elsewhere.</P> + <P>The file to be uploaded should follow correct format shown + in the <A Href="/sample.txt" class="normalsize" target="_blank"> + Sample</A>, <A Href="/sample2.txt" class="normalsize" + target="_blank">Sample2</A> text file.</P> + <P>Please follow the <A href="http://www.genenetwork.org/faq.html#Q-22" class="normalsize" target="_blank">guide</A> for naming your traits.</P> + </BLOCKQUOTE> + </TD> + """ + TD_RIGHT = HT.TD(valign="top",width="60%",bgcolor="#eeeeee") + main_title = HT.Paragraph("Batch Trait Submission Utility") + main_title.__setattr__("class","title") + + ############################# + + title1 = HT.Paragraph("1. Choose cross or RI set:") + title1.__setattr__("class","subtitle") + + STEP1 = HT.TableLite(cellSpacing=2,cellPadding=0,width="90%",border=0) + crossMenu = HT.Select(name='RISet', onChange='xchange()') + allRISets = map(lambda x: x[:-5], glob.glob1(webqtlConfig.GENODIR, '*.geno')) + allRISets.sort() + allRISets.remove("BayXSha") + allRISets.remove("ColXBur") + allRISets.remove("ColXCvi") + specMenuSub1 = HT.Optgroup(label = 'MOUSE') + specMenuSub2 = HT.Optgroup(label = 'RAT') + for item in allRISets: + if item != 'HXBBXH': + specMenuSub1.append(tuple([item,item])) + else: + specMenuSub2.append(tuple(['HXB/BXH', 'HXBBXH'])) + crossMenu.append(specMenuSub1) + crossMenu.append(specMenuSub2) + crossMenu.selected.append('BXD') + crossMenuText = HT.Paragraph('Select the cross or recombinant inbred \ + set from the menu below. ') + infoButton = HT.Input(type="button",Class="button",value="Info",\ + onClick="crossinfo2();") + # NL, 07/27/2010. variable 'IMGSTEP1' has been moved from templatePage.py to webqtlUtil.py; + TD1 = HT.TD(webqtlUtil.IMGSTEP1,width=58) + TD2 = HT.TD() + TD2.append(crossMenuText,crossMenu, infoButton) + STEP1.append(HT.TR(TD1,TD2),HT.TR(HT.TD(colspan=2,height=20))) + + ############################# + title2 = HT.Paragraph(" 2. Enter Trait Data:") + title2.__setattr__("class","subtitle") + + STEP2 = HT.TableLite(cellSpacing=2,cellPadding=0,width="90%",border=0) + Para1 = HT.Paragraph() + Para1.append('You can submit traits by entering a file name here. The \ + file should contain a number of no more than 100 traits. The file \ + should follow the file format described in this ', HT.Href(url=\ + "/sample.txt",Class="normalsize", target="_blank", \ + text= 'Sample'), ' text.') + + filebox = HT.Paragraph(HT.Input(type='file', name='batchdatafile', size=20)) + + # NL, 07/27/2010. variable 'IMGSTEP2' has been moved from templatePage.py to webqtlUtil.py; + TD1 = HT.TD(webqtlUtil.IMGSTEP2,width=58) + TD2 = HT.TD() + TD2.append(Para1,filebox) + STEP2.append(HT.TR(TD1,TD2),HT.TR(HT.TD(colspan=2,height=20))) + + ######################################### + hddn = {'FormID':'batSubmitResult'} + + form = HT.Form(cgi= os.path.join(webqtlConfig.CGIDIR, webqtlConfig.SCRIPTFILE), \ + enctype='multipart/form-data', name='crossChoice', submit=HT.Input(type='hidden')) + + submit = HT.Input(type='button' ,name='next', value='Next',onClick=\ + 'batchSelection(this.form);',Class="button") + reset = HT.Input(type='reset' ,name='reset' ,value='Reset',Class="button") + # NL, 07/27/2010. variable 'IMGNEXT' has been moved from templatePage.py to webqtlUtil.py; + form.append(HT.Blockquote(title1,HT.Center(STEP1,webqtlUtil.IMGNEXT),title2,\ + HT.Center(STEP2,webqtlUtil.IMGNEXT)),HT.Center(HT.P(),submit,reset)) + + for key in hddn.keys(): + form.append(HT.Input(name=key, value=hddn[key], type='hidden')) + + TD_RIGHT.append(main_title,form) + + self.dict['body'] = TD_LEFT + str(TD_RIGHT) + |