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#
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
# SLEPc - Scalable Library for Eigenvalue Problem Computations
# Copyright (c) 2002-, Universitat Politecnica de Valencia, Spain
#
# This file is part of SLEPc.
# SLEPc is distributed under a 2-clause BSD license (see LICENSE).
# - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
#
from __future__ import print_function
import os, sys, tempfile, shutil, tarfile
import log, argdb
from urllib.request import urlretrieve
from urllib import parse as urlparse_local
import subprocess
import socket
from shutil import which # just to break compatibility with python2
# Fix parsing for nonstandard schemes
urlparse_local.uses_netloc.extend(['bk', 'ssh', 'svn'])
class Package:
packages = [] # list of packages processed and added so far
def __init__(self,argdb,log):
self.installable = False # an already installed package can be picked --with-xxx-dir
self.downloadable = False # package can be downloaded and installed with --download-xxx
self.downloadpackage = 0
self.packagetype = '' # can be 'gnu', 'cmake', 'source_c', or empty
self.packagedir = ''
self.packagelibs = ''
self.packageincludes = ''
self.packageurl = ''
self.buildflags = ''
self.log = log
self.supportsscalar = ['real', 'complex']
self.supportssingle = False
self.supports64bint = False
self.fortran = False
self.hasheaders = False
self.requested = False
self.havepackage = False
def RunCommand(self,instr):
try:
self.log.write('- '*35+'\nRunning command:\n'+instr+'\n'+'- '*35)
except AttributeError: pass
try:
output = subprocess.check_output(instr,shell=True,stderr=subprocess.STDOUT)
result = 0
except subprocess.CalledProcessError as ex:
output = ex.output
result = ex.returncode
output = output.decode(encoding='UTF-8',errors='replace').rstrip()
try:
self.log.write('Output:\n'+output+'\n'+'- '*35)
except AttributeError: pass
return (result,output)
def ProcessArgs(self,argdb,petscpackages=''):
if hasattr(self,'petscdepend') and self.petscdepend in petscpackages:
self.requested = True
if self.installable and not hasattr(self,'petscdepend'):
string,found = argdb.PopPath('with-'+self.packagename+'-dir',exist=True)
if found:
self.requested = True
self.packagedir = string
string,found = argdb.PopString('with-'+self.packagename+'-lib')
if found:
if self.packagedir:
self.log.Exit('Specify either "--with-'+self.packagename+'-dir" or "--with-'+self.packagename+'-lib%s", but not both!' % (' --with-'+self.packagename+'-include' if self.hasheaders else ''))
self.requested = True
self.packagelibs = string
if self.hasheaders:
string,found = argdb.PopString('with-'+self.packagename+'-include')
if found:
self.requested = True
self.packageincludes = string
if self.installable:
value,found = argdb.PopBool('with-'+self.packagename)
if found:
self.requested = value
if self.downloadable:
flagsfound = False
if self.packagetype == 'gnu':
string,flagsfound = argdb.PopString('download-'+self.packagename+'-configure-arguments')
elif self.packagetype == 'cmake':
string,flagsfound = argdb.PopString('download-'+self.packagename+'-cmake-arguments')
elif self.packagetype == 'source_c':
string,flagsfound = argdb.PopString('download-'+self.packagename+'-cflags')
url,flag,found = argdb.PopUrl('download-'+self.packagename)
if found:
if self.requested:
self.log.Exit('Cannot request both download and install simultaneously')
self.requested = True
self.download = True
self.packageurl = url
self.downloadpackage = flag
if flagsfound:
if not getattr(self,'download',False):
if self.packagetype == 'gnu':
self.log.Exit('--download-'+self.packagename+'-configure-arguments must be used together with --download-'+self.packagename)
elif self.packagetype == 'cmake':
self.log.Exit('--download-'+self.packagename+'-cmake-arguments must be used together with --download-'+self.packagename)
elif self.packagetype == 'source_c':
self.log.Exit('--download-'+self.packagename+'-cflags must be used together with --download-'+self.packagename)
self.buildflags = string
def Process(self,slepcconf,slepcvars,slepcrules,slepc,petsc,archdir=''):
self.make = petsc.make
if petsc.buildsharedlib:
self.slflag = petsc.cc_linker_slflag
if self.requested:
name = self.packagename.upper()
if self.downloadpackage:
if hasattr(self,'version') and self.packageurl=='':
self.log.NewSection('Installing '+name+' version '+self.version+'...')
else:
self.log.NewSection('Installing '+name+'...')
self.Precondition(slepc,petsc)
self.DownloadAndInstall(slepcconf,slepcvars,slepc,petsc,archdir,slepc.prefixdir)
elif self.installable:
self.log.NewSection('Checking '+name+'...')
self.Precondition(slepc,petsc)
if petsc.buildsharedlib:
self.packagelibs = self.DistilLibList(self.packagelibs,petsc)
self.Check(slepcconf,slepcvars,petsc,archdir)
if not self.havepackage: self.log.setLastFailed()
try:
self.LoadVersion(slepcconf)
self.log.write('Version number for '+name+' is '+self.iversion)
except AttributeError:
pass
if self.havepackage: Package.packages.append(self)
else: # not requested
if hasattr(self,'SkipInstall'):
self.SkipInstall(slepcrules)
def Precondition(self,slepc,petsc):
package = self.packagename.upper()
if petsc.scalar == 'complex':
if 'complex' not in self.supportsscalar:
self.log.Exit(package+' does not support complex scalars')
elif petsc.scalar == 'real':
if 'real' not in self.supportsscalar:
self.log.Exit(package+' is supported only with complex scalars')
if petsc.precision == 'single':
if not self.supportssingle:
self.log.Exit(package+' is supported only in double precision')
elif petsc.precision != 'double':
self.log.Exit('Precision '+petsc.precision+' is not supported for external packages')
if petsc.ind64 and not self.supports64bint:
self.log.Exit(package+' cannot be used with 64-bit integers')
if self.downloadpackage and self.fortran and not hasattr(petsc,'fc'):
self.log.Exit('Option --download-'+self.packagename+' requires a Fortran compiler')
def Require(self,packagename):
for p in Package.packages:
if p.packagename.upper() == packagename.upper():
return p
self.log.Exit('The package '+self.packagename.upper()+' requires configuring also with '+packagename.upper()+". Run configure --help for details on how to install it")
def DistilLibList(self,packagelibs,petsc):
libs = []
for l in packagelibs.split():
if l.endswith(petsc.sl_linker_suffix):
filename = os.path.basename(l)
libs.append('-L'+l.rstrip(filename))
libs.append(self.slflag+l.rstrip(filename))
libs.append('-l'+filename.lstrip('lib').rstrip('.'+petsc.sl_linker_suffix))
else:
libs.append(l)
newldflags = []
newlibs = []
dupflags = ['-L',self.slflag]
for j in libs:
# remove duplicate -L, -Wl,-rpath options - and only consecutive -l options
if j in newldflags and any([j.startswith(flg) for flg in dupflags]): continue
if newlibs and j == newlibs[-1]: continue
if list(filter(j.startswith,['-l'])) or list(filter(j.endswith,['.lib','.a','.so','.o'])) or j in ['-Wl,-Bstatic','-Wl,-Bdynamic','-Wl,--start-group','-Wl,--end-group']:
newlibs.append(j)
else:
newldflags.append(j)
liblist = ' '.join(newldflags + newlibs)
return liblist
def GetArchiveName(self):
'''Return name of archive after downloading'''
if self.packageurl=='':
archivename = self.archive
else:
parsed = urlparse_local.urlparse(self.packageurl)
archivename = os.path.basename(parsed[2])
if archivename[0] == 'v':
archivename = archivename[1:]
try:
if archivename[0].isdigit() or int(archivename.split('.')[0],16):
archivename = self.packagename+'-'+archivename
except: pass
return archivename
def GetDirectoryName(self):
'''Return name of the directory after extracting the tarball'''
dirname = self.GetArchiveName()
for suffix in ('.tar.gz','.tgz'):
if dirname.endswith(suffix):
dirname = dirname[:-len(suffix)]
return dirname
def MissingTarball(self,downloaddir):
'''Check if tarball is missing in downloaddir'''
if self.downloadable and getattr(self,'download',False):
localFile = os.path.join(downloaddir,self.GetArchiveName())
if not os.path.exists(localFile):
url = self.packageurl
if url=='':
url = self.url
return self.packagename+': '+url+' --> '+localFile
def Download(self,externdir,downloaddir):
# Quick return: check if source is already available
if os.path.exists(os.path.join(externdir,self.GetDirectoryName())):
self.log.write('Using '+os.path.join(externdir,self.GetDirectoryName()))
return os.path.join(externdir,self.GetDirectoryName())
if downloaddir:
# Get tarball from download dir
localFile = os.path.join(downloaddir,self.GetArchiveName())
if not os.path.exists(localFile):
self.log.Exit('Could not find file '+self.GetArchiveName()+' under '+downloaddir)
url = localFile
filename = os.path.basename(url)
else:
# Download tarball
url = self.packageurl
if url=='':
url = self.url
if os.path.exists(url):
url = 'file:'+url
filename = os.path.basename(urlparse_local.urlparse(url)[2])
localFile = os.path.join(externdir,self.GetArchiveName())
self.log.write('Downloading '+url+' to '+localFile)
if os.path.exists(localFile):
os.remove(localFile)
try:
sav_timeout = socket.getdefaulttimeout()
socket.setdefaulttimeout(30)
urlretrieve(url, localFile)
socket.setdefaulttimeout(sav_timeout)
except Exception as e:
socket.setdefaulttimeout(sav_timeout)
failureMessage = '''\
Unable to download package %s from: %s
* If URL specified manually - perhaps there is a typo?
* If your network is disconnected - please reconnect and rerun ./configure
* Or perhaps you have a firewall blocking the download
* You can run with --with-packages-download-dir=/adirectory and ./configure will instruct you what packages to download manually
* or you can download the above URL manually, to /yourselectedlocation/%s
and use the configure option:
--download-%s=/yourselectedlocation/%s
''' % (self.packagename.upper(), url, filename, self.packagename, filename)
self.log.Exit(failureMessage)
# Uncompress tarball
extractdir = os.path.join(externdir,self.GetDirectoryName())
self.log.write('Uncompressing '+localFile+' to directory '+extractdir)
if os.path.exists(extractdir):
for root, dirs, files in os.walk(extractdir, topdown=False):
for name in files:
os.remove(os.path.join(root,name))
for name in dirs:
os.rmdir(os.path.join(root,name))
failureMessage = '''\
Downloaded package %s from: %s is not a tarball.
[or installed python cannot process compressed files]
* If you are behind a firewall - please fix your proxy and rerun ./configure
For example at LANL you may need to set the environmental variable http_proxy (or HTTP_PROXY?) to http://proxyout.lanl.gov
* You can run with --with-packages-download-dir=/adirectory and ./configure will instruct you what packages to download manually
* or you can download the above URL manually, to /yourselectedlocation/%s
and use the configure option:
--download-%s=/yourselectedlocation/%s
''' % (self.packagename.upper(), url, filename, self.packagename, filename)
try:
tf = tarfile.open(localFile)
except tarfile.ReadError as e:
self.log.Exit(str(e)+'\n'+failureMessage)
else:
if not tf: self.log.Exit(failureMessage)
with tf:
#git puts 'pax_global_header' as the first entry and some tar utils process this as a file
firstname = tf.getnames()[0]
if firstname == 'pax_global_header':
firstmember = tf.getmembers()[1]
else:
firstmember = tf.getmembers()[0]
# some tarfiles list packagename/ but some list packagename/filename in the first entry
if firstmember.isdir():
dirname = firstmember.name
else:
dirname = os.path.dirname(firstmember.name)
tf.extractall(path=externdir)
# fix file permissions for the untared tarballs
try:
# check if 'dirname' is set'
if dirname:
(result,output) = self.RunCommand('cd '+externdir+'; chmod -R a+r '+dirname+'; find '+dirname+r' -type d -name "*" -exec chmod a+rx {} \;')
if dirname != self.GetDirectoryName():
self.log.write('The directory name '+dirname+' is different from the expected one, renaming to '+self.GetDirectoryName())
os.rename(os.path.join(externdir,dirname),os.path.join(externdir,self.GetDirectoryName()))
dirname = self.GetDirectoryName()
else:
self.log.Warn('Could not determine dirname extracted by '+localFile+' to fix file permissions')
except RuntimeError as e:
self.log.Exit('Error changing permissions for '+dirname+' obtained from '+localFile+ ' : '+str(e))
if not downloaddir:
os.remove(localFile)
return os.path.join(externdir,dirname)
wd = 36
def ShowHelp(self):
wd = Package.wd
if self.downloadable or self.installable:
print(self.packagename.upper()+':')
if self.downloadable:
print((' --download-'+self.packagename+'[=<fname>]').ljust(wd)+': Download and install '+self.packagename.upper())
if self.packagetype == 'gnu':
print((' --download-'+self.packagename+'-configure-arguments=<flags>').ljust(wd)+': Indicate extra flags to configure '+self.packagename.upper())
elif self.packagetype == 'cmake':
print((' --download-'+self.packagename+'-cmake-arguments=<flags>').ljust(wd)+': Indicate extra flags to build '+self.packagename.upper()+' with CMake')
elif self.packagetype == 'source_c':
print((' --download-'+self.packagename+'-cflags=<flags>').ljust(wd)+': Indicate extra flags to compile '+self.packagename.upper())
if self.installable:
print((' --with-'+self.packagename+'=<bool>').ljust(wd)+': Test for '+self.packagename.upper()+' (requires PETSc with %s)'%getattr(self,'petscdepend','').upper())
if self.installable and not hasattr(self,'petscdepend'):
print((' --with-'+self.packagename+'-dir=<dir>').ljust(wd)+': Indicate the root directory of the '+self.packagename.upper()+' installation')
print((' --with-'+self.packagename+'-lib=<libraries>').ljust(wd)+': Indicate quoted list of libraries and link flags for '+self.packagename.upper())
if self.hasheaders:
print((' --with-'+self.packagename+'-include=<dirs>').ljust(wd)+': Indicate the directory of the '+self.packagename.upper()+' include files')
def ShowInfo(self):
if self.havepackage:
if hasattr(self,'version') and self.downloadpackage and self.packageurl=='':
packagename = self.packagename.upper()+' version '+self.version
else:
packagename = self.packagename.upper()
if hasattr(self,'petscdepend'):
self.log.Println(packagename+' from %s linked by PETSc' % self.petscdepend.upper())
elif hasattr(self,'packageflags'):
self.log.Println(packagename+' library flags:')
self.log.Println(' '+self.packageflags)
else:
self.log.Println(packagename+' installed')
def Link(self,functions,callbacks,flags,givencode='',cflags='',clanguage='c',logdump=True):
# Create temporary directory and makefile
try:
tmpdir = tempfile.mkdtemp(prefix='slepc-')
if not os.path.isdir(tmpdir): os.mkdir(tmpdir)
except:
self.log.Exit('Cannot create temporary directory')
try:
with open(os.path.join(tmpdir,'makefile'),'w') as makefile:
makefile.write('checklink: checklink.o\n')
makefile.write('\t${CLINKER} -o checklink checklink.o ${LINKFLAGS} ${PETSC_SNES_LIB}\n')
makefile.write('\t@${RM} -f checklink checklink.o\n')
makefile.write('include '+os.path.join('${PETSC_DIR}','lib','petsc','conf','variables')+'\n')
makefile.write('include '+os.path.join('${PETSC_DIR}','lib','petsc','conf','rules')+'\n')
if cflags:
if clanguage=='c++': makefile.write('CXXFLAGS='+cflags+'\n')
else: makefile.write('CFLAGS='+cflags+'\n')
except:
self.log.Exit('Cannot create makefile in temporary directory')
# Create source file
if givencode == '':
code = '#include "petscsnes.h"\n'
for f in functions:
code += 'PETSC_EXTERN int\n' + f + '();\n'
for c in callbacks:
code += 'int '+ c + '() { return 0; } \n'
code += 'int main() {\n'
code += 'PetscErrorCode ierr; Vec v; Mat m; KSP k;\n'
code += 'ierr = PetscInitializeNoArguments();\n'
code += 'ierr = VecCreate(PETSC_COMM_WORLD,&v);\n'
code += 'ierr = MatCreate(PETSC_COMM_WORLD,&m);\n'
code += 'ierr = KSPCreate(PETSC_COMM_WORLD,&k);\n'
code += '(void)ierr;\n'
for f in functions:
code += f + '();\n'
code += 'return 0;\n}\n'
else:
code = givencode
with open(os.path.join(tmpdir,'checklink.cxx' if clanguage=='c++' else 'checklink.c'),'w') as cfile:
cfile.write(code)
if logdump:
try:
self.log.write('- '*35+'\nChecking link with code:\n')
self.log.write(code)
except AttributeError: pass
# Try to compile test program
(result, output) = self.RunCommand('cd ' + tmpdir + ';' + self.make + ' checklink LINKFLAGS="'+flags+'"')
shutil.rmtree(tmpdir)
if result:
return (0,code + output)
else:
return (1,code + output)
def FortranLink(self,functions,callbacks,flags):
f = []
for i in functions:
f.append(i+'_')
c = []
for i in callbacks:
c.append(i+'_')
(result, output1) = self.Link(f,c,flags,logdump=False)
output1 = '\n====== With underscore Fortran names\n' + output1
if result: return ('UNDERSCORE',output1)
f = []
for i in functions:
f.append(i.upper())
c = []
for i in callbacks:
c.append(i.upper())
(result, output2) = self.Link(f,c,flags,logdump=False)
output2 = '\n====== With capital Fortran names\n' + output2
if result: return ('CAPS',output2)
output = '\n=== With linker flags: '+flags
return ('',output + output1 + output2)
def GenerateGuesses(self,name,archdir,word='lib'):
installdirs = [os.path.join(os.path.sep,'usr','local'),os.path.join(os.path.sep,'opt')]
if 'HOME' in os.environ:
installdirs.insert(0,os.environ['HOME'])
dirs = []
for i in installdirs:
dirs = dirs + [os.path.join(i,word)]
for d in [name,name.upper(),name.lower()]:
dirs = dirs + [os.path.join(i,d)]
dirs = dirs + [os.path.join(i,d,word)]
dirs = dirs + [os.path.join(i,word,d)]
for d in dirs[:]:
if not os.path.exists(d):
dirs.remove(d)
dirs = [''] + dirs + [os.path.join(archdir,word)]
return dirs
def FortranLib(self,slepcconf,slepcvars,dirs,libs,functions,callbacks = []):
name = self.packagename.upper()
mangling = ''
if isinstance(libs, str): # user-provided string with link options
flags = libs
(mangling, output) = self.FortranLink(functions,callbacks,flags)
error = output
else:
error = ''
flags = ''
for d in dirs:
for l in libs:
if d:
if hasattr(self,'slflag'):
flags = ' '.join([self.slflag + d] + ['-L' + d] + l)
else:
flags = ' '.join(['-L' + d] + l)
else:
flags = ' '.join(l)
(mangling, output) = self.FortranLink(functions,callbacks,flags)
error += output
if mangling: break
if mangling: break
if mangling:
self.log.write(output)
else:
self.log.write(error)
self.log.Exit('Unable to link with '+name+' library in directories '+' '.join(dirs)+' with libraries and link flags '+flags)
slepcconf.write('#define SLEPC_HAVE_' + name + ' 1\n#define SLEPC_' + name + '_HAVE_'+mangling+' 1\n')
if not hasattr(self,'petscdepend'):
slepcvars.write(name + '_LIB = '+flags+'\n')
self.libflags = flags
self.packageflags = flags
self.havepackage = True
def WriteMakefile(self,fname,builddir,cont):
self.log.write('Using makefile:\n')
self.log.write(cont)
with open(os.path.join(builddir,fname),'w') as mfile:
mfile.write(cont)
def DefaultIncludePath(self,petsc,file):
(result,output) = self.RunCommand('echo | '+petsc.cpp+' -Wp,-v -')
if not result:
import re
dirs = re.findall('^ .*',output,re.MULTILINE)
for s in dirs:
d = s[1:]
if os.path.isfile(os.path.join(d,file)):
self.log.write('Found '+os.path.join(d,file))
return d
return '/usr/include'
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