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Diffstat (limited to 'web/webqtl/dataSharing/SharingInfo.py')
| -rwxr-xr-x | web/webqtl/dataSharing/SharingInfo.py | 98 |
1 files changed, 0 insertions, 98 deletions
diff --git a/web/webqtl/dataSharing/SharingInfo.py b/web/webqtl/dataSharing/SharingInfo.py deleted file mode 100755 index 10abcefa..00000000 --- a/web/webqtl/dataSharing/SharingInfo.py +++ /dev/null @@ -1,98 +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 httplib - -from dbFunction import webqtlDatabaseFunction -import SharingBody - - -######################################### -# Sharing Info -######################################### -class SharingInfo: - - def __init__(self, GN_AccessionId, InfoPageName): - self.GN_AccessionId = GN_AccessionId - self.InfoPageName = InfoPageName - - def getInfo(self): - cursor = webqtlDatabaseFunction.getCursor() - if (not cursor): - return - sql = "select Id, GEO_Series, Status, Title, Organism, Experiment_Type, Summary, Overall_Design, Contributor, Citation, Submission_Date, Contact_Name, Emails, Phone, URL, Organization_Name, Department, Laboratory, Street, City, State, ZIP, Country, Platforms, Samples, Species, Normalization, InbredSet, InfoPageName, DB_Name, Organism_Id, InfoPageTitle, GN_AccesionId, Tissue, AuthorizedUsers, About_Cases, About_Tissue, About_Download, About_Array_Platform, About_Data_Values_Processing, Data_Source_Acknowledge, Progreso from InfoFiles where " - if(self.GN_AccessionId): - sql += "GN_AccesionId = %s" - cursor.execute(sql, self.GN_AccessionId) - elif (self.InfoPageName): - sql += "InfoPageName = %s" - cursor.execute(sql, self.InfoPageName) - else: - raise 'No correct parameter found' - info = cursor.fetchone() - # fetch datasets file list - try: - conn = httplib.HTTPConnection("atlas.uthsc.edu") - conn.request("GET", "/scandatasets.php?GN_AccesionId=%s" % (info[32])) - response = conn.getresponse() - data = response.read() - filelist = data.split() - conn.close() - except Exception: - filelist = [] - return info, filelist - - def getBody(self, infoupdate=""): - info, filelist = self.getInfo() - if filelist: - htmlfilelist = '<ul style="line-height:160%;">\n' - for i in range(len(filelist)): - if i%2==0: - filename = filelist[i] - filesize = filelist[i+1] - htmlfilelist += "<li>" - htmlfilelist += '<a href="ftp://atlas.uthsc.edu/users/shared/Genenetwork/GN%s/%s">%s</a>' % (self.GN_AccessionId, filename, filename) - htmlfilelist += ' ' - #r=re.compile(r'(?<=\d)(?=(\d\d\d)+(?!\d))') - #htmlfilelist += '[%s B]' % r.sub(r',',filesize) - if 12<len(filesize): - filesize=filesize[0:-12] - filesize += ' T' - elif 9<len(filesize): - filesize=filesize[0:-9] - filesize += ' G' - elif 6<len(filesize): - filesize=filesize[0:-6] - filesize += ' M' - elif 3<len(filesize): - filesize=filesize[0:-3] - filesize += ' K' - htmlfilelist += '[%sB]' % filesize - htmlfilelist += "</li>\n" - htmlfilelist += "</ul>" - else: - htmlfilelist = "Data sets are not available or are not public yet." - return SharingBody.sharinginfo_body_string % (info[31], info[32], infoupdate, info[32], info[1], info[3], info[30], info[4], info[27], info[33], info[2], info[23], info[26], info[11], info[15], info[16], info[18], info[19], info[20], info[21], info[22], info[13], info[12], info[14], info[14], htmlfilelist, info[6], info[35], info[36], info[37], info[38], info[39], info[40], info[5], info[7], info[8], info[9], info[10], info[17], info[24]) |