#!/usr/bin/env python # **************************************** # +++ BioCASE Provider Software v2 # +++ Installer script # $Id: setup.py 1094 2011-08-17 10:20:23Z j.holetschek $ # **************************************** import sys, os, string, shutil, exceptions from types import * class DevNull: '''/dev/null file object discarding all write data.''' def __init__(self): pass def write(self, x): pass ############################################################################################################ # # FUNCTIONS # #=========================================================================================================== def askForParameter(question, boolean=False, selectList=None, default=None, isFile=False, isDir=False): '''Ask user for a parameter.''' answer = default if boolean: # only ask for yes or no defaultstr = "" if default is True: defaultstr = " [yes]" elif default is False: default = False defaultstr = " [no]" answer = raw_input("%s%s " %(question, defaultstr)) if answer is None or len(answer) == 0: answer = default while not answer in (True,False,"yes","y","no","n"): print " Please choose yes or no." answer = raw_input("%s%s " %(question, defaultstr)) if answer is None or len(answer) == 0: answer = default if answer in ('yes','y',True): answer = True else: answer= False elif type(selectList) == ListType and len(selectList) > 0: i = 0 selectDict = {} for option in selectList: selectDict[i] = option if default == option: default = i question += "\n (%i) - %s" %(i,option) # ask question defaultstr = "" if default is not None: answer = raw_input("%s\nPlease select your option: [%s] " %(question, default)) if answer is None or len(answer) == 0: answer = default while not selectDict.has_key(answer): print " Please select a valid option." answer = raw_input("%s\nPlease select your option: [%s] " %(question, default)) if answer is None or len(answer) == 0: answer = default else: answer = raw_input("%s\nPlease select your option: " %(question)) while answer is None or not selectDict.has_key(answer): print " Please select a valid option." answer = raw_input("%s\nPlease select your option: " %(question)) answer = selectDict[answer] else: defaultstr = "" if default is not None: answer = raw_input("%s [%s] " %(question, default)) if answer is None or len(answer) == 0: answer = default else: answer = raw_input("%s " %(question)) while answer is None or len(answer) == 0: print "Please enter something." answer = raw_input("%s " %(question)) if isFile: # ensure its a file while not os.path.isfile(answer): print " The file does not exist. Please enter a valid filepath." answer = raw_input("%s%s " %(question, defaultstr)) elif isDir: # ensure its a directory while not os.path.isdir(answer): print " The directory does not exist. Please enter a valid dirpath." answer = raw_input("%s%s " %(question, defaultstr)) print " --> %s" % str(answer) return answer def updateBpsPathCfg(bpsPath): fn=os.path.join(bpsPath,'lib','biocase','adjustpath.py') cfgF = file(fn, 'r') cfgF.readline() # discard previous first line text = "bpsPath = r'%s'\n"%bpsPath text += cfgF.read() cfgF.close() # write back fw = file(fn, 'w') fw.write(text) fw.close() def copytree(src, dst, symlinks=False, removeSuffix=[]): """Recursively copy a directory tree using copy2(). Modified version of the shutils function. Does not raise erros when dirs already exist. The destination directory must not already exist. If exception(s) occur, an Error is raised with a list of reasons. If the optional symlinks flag is true, symbolic links in the source tree result in symbolic links in the destination tree; if it is false, the contents of the files pointed to by symbolic links are copied. """ names = os.listdir(src) if not os.path.isdir(dst): os.mkdir(dst) for name in names: srcname = os.path.join(src, name) dstname = os.path.join(dst, name) if symlinks and os.path.islink(srcname): linkto = os.readlink(srcname) os.symlink(linkto, dstname) elif os.path.isdir(srcname): copytree(srcname, dstname, symlinks, removeSuffix) else: shutil.copyfile(srcname, dstname) # remove files which end as suffix XXX in destination for suffix in removeSuffix: names = os.listdir(dst) for name in names: if name.endswith(suffix): dstname = os.path.join(dst, name) try: os.remove(dstname) except OSError: print "Could not remove file %s"%dstname def importConfiguration(ThisBpsPath): print "Importing existing configurations is currently not supported. Sorry." print "Please manually copy existing datasource files to this new installation." if askForParameter("Please press to continue ?", boolean=True, default=True): pass return ############################################################################################################ # # MAIN # #=========================================================================================================== if __name__ == "__main__": Interpreter = sys.executable # adjust syspath for biocase lib bpsPath = os.path.abspath('.') liblocator = os.path.join(bpsPath,'lib') sys.path.insert(0, liblocator) from biocase.configuration import Cfg cfg = Cfg() # make sure we have loaded the right files. # The hardcoded installation path in adjustpath.py is not necessarily right yet - we are about to configre this! cfg.reloadConfigFiles(bpsPath=bpsPath) # get this bps version from biocase import __version__ as Version # Intro text print ''' +++ BioCASE Provider Software +++ Version %s +++ Installer script Configure BPS with: Python %s BPS Library %s This setup tool adapts the BioCASe Provider Software (BPS) to your system environment.'''%(Version,Interpreter, liblocator) # check for python version. if (sys.version[:3]< '2.5'): print '''Warning! This software was build for Python 2.5+ Your current version %s of Python might not be supported, but you can try to run it anyways. ''' % string.split(sys.version, ' ')[0] if not askForParameter("Do you really want to install BPS with your existing python interpreter?", boolean=True, default=False): sys.exit() # update configuration.py libPath print "\n --> Updated absolute path to installation in configuration.py to %s"%bpsPath updateBpsPathCfg(bpsPath) # ask for upgrade #if askForParameter("\nThis script can import configurations from an existing BPS installation. Datasources, querytool skins and new custom templates will be copied, but modifications to default templates (querytool default skin) will be lost. This script will not modify your existing installation.\nDo you want to import configurations from an existing BPS installation ?", boolean=True, default=False): # BpsImportPath = importConfiguration(bpsPath) #else: cfg.server.host = askForParameter("Please indicate the domain of your webserver:", default='http://localhost') cfg.server.webroot = askForParameter("Please indicate the base URL you are planning to use for the software:", default='/biocase') cfg.__save__() # run adapt2 tool os.chdir(os.path.join(bpsPath,'tools')) # change current working directory to adapt script print "Adapting file permissions and shebang lines to use python %s"%Interpreter execfile( os.path.join(bpsPath,'tools','fixpermissions.py' )) # FINISHED print "\n\n" print "#"*80 print "Setup done." print "Please remember to setup Python CGIs on your webserver." print "If you use Apache, you can copy this snippet into your http.conf file:\n" BpsWwwPath = os.path.join(bpsPath, "www") print '''Alias %s "%s" AllowOverride None Order allow,deny Allow from all Options +ExecCGI +Indexes AddHandler cgi-script cgi AddHandler cgi-script py DirectoryIndex index.cgi index.py index.html ''' % (cfg.server.webroot, BpsWwwPath, BpsWwwPath) print "\nPlease test your installation at %s" %cfg.getWebappURL()