aboutsummaryrefslogtreecommitdiff
path: root/wqflask/dataSharing/SharingInfo.py
diff options
context:
space:
mode:
Diffstat (limited to 'wqflask/dataSharing/SharingInfo.py')
-rwxr-xr-xwqflask/dataSharing/SharingInfo.py98
1 files changed, 0 insertions, 98 deletions
diff --git a/wqflask/dataSharing/SharingInfo.py b/wqflask/dataSharing/SharingInfo.py
deleted file mode 100755
index 10abcefa..00000000
--- a/wqflask/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 += '&nbsp;&nbsp;&nbsp;'
- #r=re.compile(r'(?<=\d)(?=(\d\d\d)+(?!\d))')
- #htmlfilelist += '[%s&nbsp;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])