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#!/usr/bin/env python3
from __future__ import print_function
import os
import sys
import pickle
import traceback
banner_length = 93
extraLogs = []
petsc_arch = ''
# Use en_US as language so that BuildSystem parses compiler messages in english
def fixLang(lang):
if lang in os.environ and os.environ[lang] != '':
lv = os.environ[lang]
enc = ''
try: lv,enc = lv.split('.')
except: pass
if lv not in ['en_US','C']: lv = 'en_US'
if enc: lv = lv+'.'+enc
os.environ[lang] = lv
fixLang('LC_LOCAL')
fixLang('LANG')
def check_for_option_mistakes(opts):
for opt in opts[1:]:
name = opt.split('=')[0]
if name.find(' ') >= 0:
raise ValueError('The option "'+name+'" has a space character in the name - this is likely incorrect usage.');
if name.find('_') >= 0:
exception = False
for exc in ['mkl_sparse', 'mkl_sparse_optimize', 'mkl_cpardiso', 'mkl_pardiso', 'superlu_dist', 'PETSC_ARCH', 'PETSC_DIR', 'CXX_CXXFLAGS', 'LD_SHARED', 'CC_LINKER_FLAGS', 'CXX_LINKER_FLAGS', 'FC_LINKER_FLAGS', 'AR_FLAGS', 'C_VERSION', 'CXX_VERSION', 'FC_VERSION', 'size_t', 'MPI_Comm','MPI_Fint','int64_t','scikit_build_core', 'fenics_ffcx']:
if name.find(exc) >= 0:
exception = True
if not exception:
raise ValueError('The option '+name+' should probably be '+name.replace('_', '-'));
if opt.find('=') >=0:
optval = opt.split('=')[1]
if optval == 'ifneeded':
raise ValueError('The option '+opt+' should probably be '+opt.replace('ifneeded', '1'));
for exc in ['mkl_sparse', 'mkl_sparse_optimize', 'mkl_cpardiso', 'mkl_pardiso', 'superlu_dist']:
if name.find(exc.replace('_','-')) > -1:
raise ValueError('The option '+opt+' should be '+opt.replace(exc.replace('_','-'),exc));
return
def check_for_unsupported_combinations(opts):
if '--with-precision=single' in opts and '--with-clanguage=cxx' in opts and '--with-scalar-type=complex' in opts:
raise ValueError('PETSc does not support single precision complex with C++ clanguage, run with --with-clanguage=c')
def check_for_option_changed(opts):
# Document changes in command line options here. (matlab-engine is deprecated, no longer needed but still allowed)
optMap = [('with-64bit-indices','with-64-bit-indices'),
('with-mpi-exec','with-mpiexec'),
('c-blas-lapack','f2cblaslapack'),
('cholmod','suitesparse'),
('umfpack','suitesparse'),
('matlabengine','matlab-engine'),
('sundials','sundials2'),
('f-blas-lapack','fblaslapack'),
('with-packages-dir','with-packages-download-dir'),
('with-external-packages-dir','with-packages-build-dir'),
('package-dirs','with-packages-search-path'),
('download-petsc4py-python','with-python-exec'),
('search-dirs','with-executables-search-path')]
for opt in opts[1:]:
optname = opt.split('=')[0].strip('-')
for oldname,newname in optMap:
if optname.find(oldname) >=0 and not optname.find(newname) >=0:
raise ValueError('The option '+opt+' should probably be '+opt.replace(oldname,newname))
return
def check_petsc_arch(opts):
# If PETSC_ARCH not specified - use script name (if not configure.py)
global petsc_arch
found = 0
for name in opts:
if name.find('PETSC_ARCH=') >= 0:
petsc_arch=name.split('=')[1]
found = 1
break
# If not yet specified - use the filename of script
if not found:
filename = os.path.basename(sys.argv[0])
if not filename.startswith('configure') and not filename.startswith('reconfigure') and not filename.startswith('setup'):
petsc_arch=os.path.splitext(os.path.basename(sys.argv[0]))[0]
useName = 'PETSC_ARCH='+petsc_arch
opts.append(useName)
return 0
def chkenable():
#Replace all 'enable-'/'disable-' with 'with-'=0/1/tail
#enable-fortran is a special case, the resulting --with-fortran is ambiguous.
#Would it mean --with-fc=
en_dash = u'\N{EN DASH}'
no_break_space = u'\N{NO-BREAK SPACE}'
for l in range(0,len(sys.argv)):
name = sys.argv[l]
if name.find(no_break_space) >= 0:
raise ValueError('Unicode NO-BREAK SPACE char found in arguments! Please rerun configure using regular space chars: %s' % [name])
name = name.replace(en_dash,'-')
if hasattr(name,'isprintable') and not name.isprintable():
raise ValueError('Non-printable characters or control characters found in arguments! Please rerun configure using only printable character arguments: %s' % [name])
if name.lstrip('-').startswith('enable-cxx'):
if name.find('=') == -1:
name = name.replace('enable-cxx','with-clanguage=C++',1)
else:
head, tail = name.split('=', 1)
if tail=='0':
name = head.replace('enable-cxx','with-clanguage=C',1)
else:
name = head.replace('enable-cxx','with-clanguage=C++',1)
sys.argv[l] = name
continue
if name.lstrip('-').startswith('disable-cxx'):
if name.find('=') == -1:
name = name.replace('disable-cxx','with-clanguage=C',1)
else:
head, tail = name.split('=', 1)
if tail == '0':
name = head.replace('disable-cxx','with-clanguage=C++',1)
else:
name = head.replace('disable-cxx','with-clanguage=C',1)
sys.argv[l] = name
continue
if name.lstrip('-').startswith('enable-'):
if name.find('=') == -1:
name = name.replace('enable-','with-',1)+'=1'
else:
head, tail = name.split('=', 1)
name = head.replace('enable-','with-',1)+'='+tail
if name.lstrip('-').startswith('disable-'):
if name.find('=') == -1:
name = name.replace('disable-','with-',1)+'=0'
else:
head, tail = name.split('=', 1)
if tail == '1': tail = '0'
name = head.replace('disable-','with-',1)+'='+tail
if name.lstrip('-').startswith('without-'):
if name.find('=') == -1:
name = name.replace('without-','with-',1)+'=0'
else:
head, tail = name.split('=', 1)
if tail == '1': tail = '0'
name = head.replace('without-','with-',1)+'='+tail
sys.argv[l] = name
def chksynonyms():
#replace common configure options with ones that PETSc BuildSystem recognizes
simplereplacements = {'F77' : 'FC', 'F90' : 'FC'}
for l in range(0,len(sys.argv)):
name = sys.argv[l]
name = name.replace('download-petsc4py','with-petsc4py')
name = name.replace('with-openmpi','with-mpi')
name = name.replace('with-mpich','with-mpi')
name = name.replace('with-blas-lapack','with-blaslapack')
name = name.replace('with-cuda-gencodearch','with-cuda-arch')
name = name.replace('download-hdf5-fortran-bindings','with-hdf5-fortran-bindings')
if name.find('with-debug=') >= 0 or name.endswith('with-debug'):
if name.find('=') == -1:
name = name.replace('with-debug','with-debugging')+'=1'
else:
head, tail = name.split('=', 1)
name = head.replace('with-debug','with-debugging')+'='+tail
if name.find('with-shared=') >= 0 or name.endswith('with-shared'):
if name.find('=') == -1:
name = name.replace('with-shared','with-shared-libraries')+'=1'
else:
head, tail = name.split('=', 1)
name = head.replace('with-shared','with-shared-libraries')+'='+tail
if name.find('with-index-size=') >=0:
head,tail = name.split('=',1)
if int(tail)==32:
name = '--with-64-bit-indices=0'
elif int(tail)==64:
name = '--with-64-bit-indices=1'
else:
raise ValueError('--with-index-size= must be 32 or 64')
if name.find('with-precision=') >=0:
head,tail = name.split('=',1)
if tail.find('quad')>=0:
name='--with-precision=__float128'
for i,j in simplereplacements.items():
if name.find(i+'=') >= 0:
name = name.replace(i+'=',j+'=')
elif name.find('with-'+i.lower()+'=') >= 0:
name = name.replace(i.lower()+'=',j.lower()+'=')
# restore 'sys.argv[l]' from the intermediate var 'name'
sys.argv[l] = name
def chkwincompilerusinglink():
for arg in sys.argv:
if (arg.find('win32fe') >= 0 and (arg.find('ifort') >=0 or arg.find('icl') >=0)):
return 1
return 0
def chkdosfiles():
# cygwin - but not a hg clone - so check one of files in bin dir
if b"\r\n" in open(os.path.join('lib','petsc','bin','petscmpiexec'),"rb").read():
print('===============================================================================')
print(' *** Scripts are in DOS mode. Was winzip used to extract PETSc sources? ****')
print(' *** Please restart with a fresh tarball and use "tar -xzf petsc.tar.gz" ****')
print('===============================================================================')
sys.exit(3)
return
def chkcygwinlink():
if os.path.exists('/usr/bin/cygcheck.exe') and os.path.exists('/usr/bin/link.exe') and chkwincompilerusinglink():
if '--ignore-cygwin-link' in sys.argv: return 0
print('===============================================================================')
print(' *** Cygwin /usr/bin/link detected! Compiles with Intel icl/ifort can break! **')
print(' *** To workaround do: "mv /usr/bin/link.exe /usr/bin/link-cygwin.exe" **')
print(' *** Or to ignore this check, use configure option: --ignore-cygwin-link. But compiles can fail. **')
print('===============================================================================')
sys.exit(3)
return 0
def chkbrokencygwin():
if os.path.exists('/usr/bin/cygcheck.exe'):
buf = os.popen('/usr/bin/cygcheck.exe -c cygwin').read()
if buf.find('1.5.11-1') > -1:
print('===============================================================================')
print(' *** cygwin-1.5.11-1 detected. ./configure fails with this version ***')
print(' *** Please upgrade to cygwin-1.5.12-1 or newer version. This can ***')
print(' *** be done by running cygwin-setup, selecting "next" all the way.***')
print('===============================================================================')
sys.exit(3)
return 0
def chkusingwindowspython():
if sys.platform == 'win32':
print('===============================================================================')
print(' *** Windows python detected. Please rerun ./configure with cygwin-python. ***')
print('===============================================================================')
sys.exit(3)
return 0
def chkcygwinpython():
if sys.platform == 'cygwin' :
import platform
import re
r=re.compile("([0-9]+).([0-9]+).([0-9]+)")
m=r.match(platform.release())
major=int(m.group(1))
minor=int(m.group(2))
subminor=int(m.group(3))
if ((major < 1) or (major == 1 and minor < 7) or (major == 1 and minor == 7 and subminor < 34)):
sys.argv.append('--useThreads=0')
extraLogs.append('''\
===============================================================================
** Cygwin version is older than 1.7.34. Python threads do not work correctly. ***
** Disabling thread usage for this run of ./configure *******
===============================================================================''')
return 0
def chkcygwinwindowscompilers():
''' Converts Microsoft and Intel Windows compilers to PETSc script using win32fe'''
if os.path.exists('/usr/bin/cygcheck.exe'):
path = os.path.join(os.getcwd(),'lib','petsc','bin','win32fe')
for l in range(1,len(sys.argv)):
option = sys.argv[l]
for i in ['cl','icl','ifort','icx','ifx','lib','nvcc']:
if option.endswith('="win32fe '+i+'"'):
sys.argv[l] = option[:option.find('=')+1]+os.path.join(path,'win32fe_'+i)
print('===============================================================================')
print(' *** Arguments of the form XXX="win32fe '+i+'" are deprecated ****')
print(' *** Use XXX='+i+' ****')
print('===============================================================================')
break
if option.endswith('='+i):
sys.argv[l] = option[:option.find('=')+1]+os.path.join(path,'win32fe_'+i)
break
return 0
def chkrhl9():
if os.path.exists('/etc/redhat-release'):
try:
file = open('/etc/redhat-release','r')
buf = file.read()
file.close()
except:
# can't read file - assume dangerous RHL9
buf = 'Shrike'
if buf.find('Shrike') > -1:
sys.argv.append('--useThreads=0')
extraLogs.append('''\
==============================================================================
*** RHL9 detected. Threads do not work correctly with this distribution ***
****** Disabling thread usage for this run of ./configure *********
===============================================================================''')
return 0
def chktmpnoexec():
if not hasattr(os,'ST_NOEXEC'): return # novermin
if 'TMPDIR' in os.environ: tmpDir = os.environ['TMPDIR']
else: tmpDir = '/tmp'
if os.statvfs(tmpDir).f_flag & os.ST_NOEXEC: # novermin
if os.statvfs(os.path.abspath('.')).f_flag & os.ST_NOEXEC: # novermin
print('************************************************************************')
print('* TMPDIR '+tmpDir+' has noexec attribute. Same with '+os.path.abspath('.')+' where PETSc is built.')
print('* Suggest building PETSc in a location without this restriction!')
print('* Alternatively, set env variable TMPDIR to a location that is not restricted to run binaries.')
print('************************************************************************')
sys.exit(4)
else:
newTmp = os.path.abspath('tmp-petsc')
print('************************************************************************')
print('* TMPDIR '+tmpDir+' has noexec attribute. Using '+newTmp+' instead.')
print('************************************************************************')
if not os.path.isdir(newTmp): os.mkdir(os.path.abspath(newTmp))
os.environ['TMPDIR'] = newTmp
return
def check_cray_modules():
import script
'''For Cray systems check if the cc, CC, ftn compiler suite modules have been set'''
cray = os.getenv('CRAY_SITE_LIST_DIR')
if not cray: return
cray = os.getenv('CRAYPE_DIR')
if not cray:
print('************************************************************************')
print('* You are on a Cray system but no programming environments have been loaded')
print('* Perhaps you need:')
print('* module load intel ; module load PrgEnv-intel')
print('* or module load PrgEnv-cray')
print('* or module load PrgEnv-gnu')
print('* See https://petsc.org/release/install/install/#installing-on-large-scale-doe-systems')
print('************************************************************************')
sys.exit(4)
def check_broken_configure_log_links():
'''Sometime symlinks can get broken if the original files are deleted. Delete such broken links'''
import os
for logfile in ['configure.log','configure.log.bkp']:
if os.path.islink(logfile) and not os.path.isfile(logfile): os.remove(logfile)
return
def move_configure_log(framework):
'''Move configure.log to PETSC_ARCH/lib/petsc/conf - and update configure.log.bkp in both locations appropriately'''
global petsc_arch
if hasattr(framework,'arch'): petsc_arch = framework.arch
if hasattr(framework,'logName'): curr_file = framework.logName
else: curr_file = 'configure.log'
if petsc_arch:
import shutil
import os
# Just in case - confdir is not created
lib_dir = os.path.join(petsc_arch,'lib')
petsc_dir = os.path.join(petsc_arch,'lib','petsc')
conf_dir = os.path.join(petsc_arch,'lib','petsc','conf')
if not os.path.isdir(petsc_arch): os.mkdir(petsc_arch)
if not os.path.isdir(lib_dir): os.mkdir(lib_dir)
if not os.path.isdir(petsc_dir): os.mkdir(petsc_dir)
if not os.path.isdir(conf_dir): os.mkdir(conf_dir)
curr_bkp = curr_file + '.bkp'
new_file = os.path.join(conf_dir,curr_file)
new_bkp = new_file + '.bkp'
# Keep backup in $PETSC_ARCH/lib/petsc/conf location
if os.path.isfile(new_bkp): os.remove(new_bkp)
if os.path.isfile(new_file): os.rename(new_file,new_bkp)
if os.path.isfile(curr_file):
shutil.copyfile(curr_file,new_file)
os.remove(curr_file)
if os.path.isfile(new_file): os.symlink(new_file,curr_file)
# If the old bkp is using the same PETSC_ARCH/lib/petsc/conf - then update bkp link
if os.path.realpath(curr_bkp) == os.path.realpath(new_file):
if os.path.isfile(curr_bkp): os.remove(curr_bkp)
if os.path.isfile(new_bkp): os.symlink(new_bkp,curr_bkp)
return
def print_final_timestamp(framework):
import time
framework.log.write(('='*80)+'\n')
framework.log.write('Finishing configure run at '+time.strftime('%a, %d %b %Y %H:%M:%S %z')+'\n')
framework.log.write(('='*80)+'\n')
return
def petsc_configure(configure_options):
petscdir = os.getcwd()
try:
sys.path.append(os.path.join(petscdir,'lib','petsc','bin'))
import petscnagupgrade
file = os.path.join(petscdir,'.nagged')
if not petscnagupgrade.naggedtoday(file):
petscnagupgrade.currentversion(petscdir)
except:
pass
# Should be run from the toplevel
configDir = os.path.abspath('config')
bsDir = os.path.join(configDir, 'BuildSystem')
if not os.path.isdir(configDir):
raise RuntimeError('Run configure from $PETSC_DIR, not '+os.path.abspath('.'))
sys.path.insert(0, bsDir)
sys.path.insert(0, configDir)
import logger
import config.base
import config.framework
try:
# Command line arguments take precedence (but don't destroy argv[0])
sys.argv = sys.argv[:1] + configure_options + sys.argv[1:]
check_for_option_mistakes(sys.argv)
check_for_option_changed(sys.argv)
check_for_unsupported_combinations(sys.argv)
check_petsc_arch(sys.argv)
check_broken_configure_log_links()
#rename '--enable-' to '--with-'
chkenable()
# support a few standard configure option types
chksynonyms()
except (TypeError, ValueError) as e:
msg = logger.build_multiline_error_message('ERROR in COMMAND LINE ARGUMENT to ./configure', str(e))
sys.exit(msg)
chkbrokencygwin()
# Disable threads on RHL9
chkrhl9()
# Make sure cygwin-python is used on windows
chkusingwindowspython()
# Threads don't work for cygwin & python...
chkcygwinpython()
chkcygwinlink()
chkdosfiles()
chkcygwinwindowscompilers()
chktmpnoexec()
for l in range(1,len(sys.argv)):
if sys.argv[l].startswith('--with-fc=') and sys.argv[l].endswith('nagfor'):
# need a way to save this value and later CC so that petscnagfor may use them
name = sys.argv[l].split('=')[1]
sys.argv[l] = '--with-fc='+os.path.join(os.path.abspath('.'),'lib','petsc','bin','petscnagfor')
break
# Check Cray without modules
check_cray_modules()
tbo = None
framework = None
try:
framework = config.framework.Framework(['--configModules=PETSc.Configure','--optionsModule=config.compilerOptions']+sys.argv[1:], loadArgDB = 0)
framework.setup()
framework.logPrintBox('Configuring PETSc to compile on your system')
framework.logPrint('\n'.join(extraLogs))
framework.configure(out = sys.stdout)
framework.storeSubstitutions(framework.argDB)
framework.argDB['configureCache'] = pickle.dumps(framework)
framework.printSummary()
framework.argDB.save(force = True)
framework.logClear()
print_final_timestamp(framework)
framework.closeLog()
try:
move_configure_log(framework)
except:
# perhaps print an error about unable to shuffle logs?
pass
return 0
except (RuntimeError, config.base.ConfigureSetupError) as e:
tbo = sys.exc_info()[2]
msg = logger.build_multiline_error_message('UNABLE to CONFIGURE with GIVEN OPTIONS (see configure.log for details):', str(e))
se = ''
except (TypeError, ValueError) as e:
# this exception is automatically deleted by Python so we need to save it to print below
tbo = sys.exc_info()[2]
msg = logger.build_multiline_error_message('TypeError or ValueError possibly related to ERROR in COMMAND LINE ARGUMENT while running ./configure', str(e))
se = ''
except ImportError as e :
# this exception is automatically deleted by Python so we need to save it to print below
tbo = sys.exc_info()[2]
msg = logger.build_multiline_error_message('ImportError while running ./configure', str(e))
se = ''
except OSError as e :
tbo = sys.exc_info()[2]
msg = logger.build_multiline_error_message('OSError while running ./configure', str(e))
se = ''
except SystemExit as e:
tbo = sys.exc_info()[2]
if e.code is None or e.code == 0:
return
if e.code == 10:
sys.exit(10)
msg = logger.build_multiline_error_message('CONFIGURATION FAILURE (Please send configure.log to petsc-maint@mcs.anl.gov)', str(e))
se = str(e)
except Exception as e:
tbo = sys.exc_info()[2]
msg = logger.build_multiline_error_message('CONFIGURATION CRASH (Please send configure.log to petsc-maint@mcs.anl.gov)', str(e))
se = str(e)
print('\n'+msg)
if not framework is None:
framework.logClear()
if hasattr(framework, 'log'):
try:
if hasattr(framework,'compilerDefines'):
framework.log.write('**** Configure header '+framework.compilerDefines+' ****\n')
framework.outputHeader(framework.log)
if hasattr(framework,'compilerFixes'):
framework.log.write('**** C specific Configure header '+framework.compilerFixes+' ****\n')
framework.outputCHeader(framework.log)
except Exception as e:
framework.log.write('Problem writing headers to log: '+str(e))
try:
if hasattr(framework,'additional_error_message'): se += logger.build_multiline_message('',framework.additional_error_message)+'\n\n'
framework.log.write(msg+se)
traceback.print_tb(tbo, file = framework.log)
print_final_timestamp(framework)
if hasattr(framework,'log'): framework.log.close()
move_configure_log(framework)
except Exception as e:
print('Error printing error message from exception or printing the traceback:'+str(e))
traceback.print_tb(sys.exc_info()[2])
sys.exit(1)
else:
print(se)
traceback.print_tb(tbo)
else:
print(se)
traceback.print_tb(tbo)
if hasattr(framework,'log'): framework.log.close()
if __name__ == '__main__':
petsc_configure([])
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