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751 lines
23 KiB
751 lines
23 KiB
from __future__ import absolute_import, division, print_function
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import sys
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import os
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import os.path as op
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import time
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import shutil
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import tempfile
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try:
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import numpy
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except ImportError:
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# numpy might not be available when running install_prerequisites
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class numpy():
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def __init__(self):
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pass
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@classmethod
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def get_include(self):
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return None
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from distutils.sysconfig import get_python_inc
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from setuptools import setup, Extension, Command
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from setuptools.command.build_py import build_py
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from setuptools.command.build_ext import build_ext
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from setuptools.command.install import install
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packname = 'pyrocko'
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version = '2019.06.06'
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class NotInAGitRepos(Exception):
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pass
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def git_infos():
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'''Query git about sha1 of last commit and check if there are local \
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modifications.'''
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from subprocess import Popen, PIPE
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import re
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def q(c):
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return Popen(c, stdout=PIPE).communicate()[0]
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if not op.exists('.git'):
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raise NotInAGitRepos()
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sha1 = q(['git', 'log', '--pretty=oneline', '-n1']).split()[0]
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sha1 = re.sub(br'[^0-9a-f]', '', sha1)
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sha1 = str(sha1.decode('ascii'))
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sstatus = q(['git', 'status', '--porcelain', '-uno'])
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local_modifications = bool(sstatus.strip())
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return sha1, local_modifications
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def bash_completions_dir():
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from subprocess import Popen, PIPE
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def q(c):
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return Popen(c, stdout=PIPE).communicate()[0]
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try:
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d = q(['pkg-config', 'bash-completion', '--variable=completionsdir'])
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return d.strip().decode('utf-8')
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except Exception:
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return None
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def make_info_module(packname, version):
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'''Put version and revision information into file src/info.py.'''
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sha1, local_modifications = None, None
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combi = '%s-%s' % (packname, version)
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try:
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sha1, local_modifications = git_infos()
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combi += '-%s' % sha1
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if local_modifications:
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combi += '-modified'
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except (OSError, NotInAGitRepos):
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pass
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datestr = time.strftime('%Y-%m-%d_%H:%M:%S')
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combi += '-%s' % datestr
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s = '''# This module is automatically created from setup.py
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git_sha1 = %s
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local_modifications = %s
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version = %s
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long_version = %s # noqa
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installed_date = %s
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''' % tuple([repr(x) for x in (
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sha1, local_modifications, version, combi, datestr)])
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try:
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f = open(op.join('src', 'info.py'), 'w')
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f.write(s)
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f.close()
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except Exception:
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pass
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def make_prerequisites():
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from subprocess import check_call
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try:
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check_call(['sh', 'prerequisites/prerequisites.sh'])
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except Exception:
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sys.exit('error: failed to build the included prerequisites with '
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'"sh prerequisites/prerequisites.sh"')
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def get_readme_paths():
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paths = []
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for (path, dirnames, filenames) in os.walk(
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op.join(op.dirname(__file__), 'src')):
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paths.extend(
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[op.join(path.split('/', 1)[1], fn) for fn in filenames if
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fn == 'README.md'])
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return paths
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def get_build_include(lib_name):
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return op.join(op.dirname(op.abspath(__file__)), lib_name)
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def find_pyrocko_installs():
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found = []
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seen = set()
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orig_sys_path = sys.path
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for p in sys.path:
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ap = op.abspath(p)
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if ap == op.abspath('.'):
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continue
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if ap in seen:
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continue
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seen.add(ap)
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sys.path = [p]
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try:
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import pyrocko
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dpath = op.dirname(op.abspath(pyrocko.__file__))
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x = (pyrocko.installed_date, p, dpath,
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pyrocko.long_version)
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found.append(x)
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del sys.modules['pyrocko']
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del sys.modules['pyrocko.info']
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except (ImportError, AttributeError):
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pass
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sys.path = orig_sys_path
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return found
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def print_installs(found, file):
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print(
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'\nsys.path configuration is: \n %s\n' % '\n '.join(sys.path),
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file=file)
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dates = sorted([xx[0] for xx in found])
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i = 1
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for (installed_date, p, installed_path, long_version) in found:
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oldnew = ''
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if len(dates) >= 2:
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if installed_date == dates[0]:
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oldnew = ' (oldest)'
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if installed_date == dates[-1]:
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oldnew = ' (newest)'
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print('''Pyrocko installation #%i:
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date installed: %s%s
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version: %s
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path: %s
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''' % (i, installed_date, oldnew, long_version, installed_path), file=file)
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i += 1
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def check_multiple_install():
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found = find_pyrocko_installs()
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e = sys.stderr
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dates = sorted([xx[0] for xx in found])
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if len(found) > 1:
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print_installs(found, e)
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if len(found) > 1:
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print(
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'''Installation #1 is used with default sys.path configuration.
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WARNING: Multiple installations of Pyrocko are present on this system.''',
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file=e)
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if found[0][0] != dates[-1]:
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print('WARNING: Not using newest installed version.', file=e)
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def check_pyrocko_install_compat():
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found = find_pyrocko_installs()
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if len(found) == 0:
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return
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expected_submodules = ['gui', 'dataset', 'client',
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'streaming', 'io', 'model']
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installed_date, p, install_path, long_version = found[0]
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installed_submodules = [d for d in os.listdir(install_path)
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if op.isdir(op.join(install_path, d))]
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if not all([ed in installed_submodules for ed in expected_submodules]):
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print_installs(found, sys.stdout)
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print('''\n
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###############################################################################
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WARNING: Found an old, incompatible, Pyrocko installation!
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Please purge the old installation and the 'build' directory before installing
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this new version:
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sudo rm -rf '%s' build
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###############################################################################
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''' % install_path)
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sys.exit(1)
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class CheckInstalls(Command):
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description = '''check for multiple installations of Pyrocko'''
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user_options = []
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def initialize_options(self):
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pass
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def finalize_options(self):
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pass
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def run(self):
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check_multiple_install()
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class Uninstall(Command):
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description = 'delete installations of Pyrocko known to the invoked ' \
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'Python interpreter'''
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user_options = []
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def initialize_options(self):
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pass
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def finalize_options(self):
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pass
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def run(self):
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found = find_pyrocko_installs()
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print_installs(found, sys.stdout)
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if found:
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print('''
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Use the following commands to remove the Pyrocko installation(s) known to the
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currently running Python interpreter:
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sudo rm -rf build''')
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for _, _, install_path, _ in found:
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print(' sudo rm -rf "%s"' % install_path)
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print()
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else:
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print('''
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No Pyrocko installations found with the currently running Python interpreter.
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''')
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class CustomInstallCommand(install):
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def symlink_interpreter(self):
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if hasattr(self, 'install_scripts') and sys.executable:
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target = os.path.join(self.install_scripts, 'pyrocko-python')
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if os.path.exists(target):
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os.unlink(target)
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os.symlink(sys.executable, target)
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def run(self):
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check_pyrocko_install_compat()
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install.run(self)
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self.symlink_interpreter()
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check_multiple_install()
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bd_dir = bash_completions_dir()
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if bd_dir:
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try:
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shutil.copy('extras/pyrocko', bd_dir)
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print('Installing pyrocko bash_completion to "%s"' % bd_dir)
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except Exception:
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print(
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'Could not install pyrocko bash_completion to "%s" '
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'(continuing without)'
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% bd_dir)
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class InstallPrerequisits(Command):
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description = '''install prerequisites with system package manager'''
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user_options = [
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('force-yes', None, 'Do not ask for confirmation to install')]
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def initialize_options(self):
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self.force_yes = False
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def finalize_options(self):
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pass
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def run(self):
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from subprocess import Popen, PIPE, STDOUT
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import platform
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distribution = platform.linux_distribution()[0].lower().rstrip()
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if distribution == 'ubuntu':
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distribution = 'debian'
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if distribution.startswith('centos'):
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distribution = 'centos'
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fn = 'prerequisites/prerequisites_%s_python%i.sh' % (
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distribution, sys.version_info.major)
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if not self.force_yes:
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try:
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input = raw_input
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except NameError:
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pass
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confirm = input('Execute: %s \n\
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proceed? [y/n]' % open(fn, 'r').read())
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if not confirm.lower() == 'y':
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sys.exit(0)
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p = Popen(['sh', fn], stdin=PIPE, stdout=PIPE, stderr=STDOUT,
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shell=False)
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while p.poll() is None:
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print(p.stdout.readline().decode(
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'ascii', errors='replace').rstrip())
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print(p.stdout.read().decode('ascii', errors='replace'))
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class CustomBuildPyCommand(build_py):
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def make_compat_modules(self):
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mapping = [
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('pyrocko', 'css', ['pyrocko.io.css']),
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('pyrocko', 'datacube', ['pyrocko.io.datacube']),
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('pyrocko.fdsn', '__init__', []),
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('pyrocko.fdsn', 'enhanced_sacpz', ['pyrocko.io.enhanced_sacpz']),
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('pyrocko.fdsn', 'station', ['pyrocko.io.stationxml']),
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('pyrocko', 'gcf', ['pyrocko.io.gcf']),
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('pyrocko', 'gse1', ['pyrocko.io.gse1']),
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('pyrocko', 'gse2_io_wrap', ['pyrocko.io.gse2']),
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('pyrocko', 'ims', ['pyrocko.io.ims']),
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('pyrocko', 'io_common', ['pyrocko.io.io_common']),
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('pyrocko', 'kan', ['pyrocko.io.kan']),
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('pyrocko', 'mseed', ['pyrocko.io.mseed']),
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('pyrocko', 'rdseed', ['pyrocko.io.rdseed']),
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('pyrocko.fdsn', 'resp', ['pyrocko.io.resp']),
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('pyrocko', 'sacio', ['pyrocko.io.sac']),
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('pyrocko', 'segy', ['pyrocko.io.segy']),
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('pyrocko', 'seisan_response', ['pyrocko.io.seisan_response']),
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('pyrocko', 'seisan_waveform', ['pyrocko.io.seisan_waveform']),
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('pyrocko', 'suds', ['pyrocko.io.suds']),
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('pyrocko', 'yaff', ['pyrocko.io.yaff']),
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('pyrocko', 'eventdata', ['pyrocko.io.eventdata']),
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('pyrocko.fdsn', 'ws', ['pyrocko.client.fdsn']),
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('pyrocko', 'catalog', ['pyrocko.client.catalog']),
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('pyrocko', 'iris_ws', ['pyrocko.client.iris']),
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('pyrocko', 'crust2x2', ['pyrocko.dataset.crust2x2']),
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('pyrocko', 'crustdb', ['pyrocko.dataset.crustdb']),
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('pyrocko', 'geonames', ['pyrocko.dataset.geonames']),
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('pyrocko', 'tectonics', ['pyrocko.dataset.tectonics']),
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('pyrocko', 'topo', ['pyrocko.dataset.topo']),
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('pyrocko', 'automap', ['pyrocko.plot.automap']),
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('pyrocko', 'beachball', ['pyrocko.plot.beachball']),
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('pyrocko', 'cake_plot', ['pyrocko.plot.cake_plot']),
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('pyrocko', 'gmtpy', ['pyrocko.plot.gmtpy']),
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('pyrocko', 'hudson', ['pyrocko.plot.hudson']),
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('pyrocko', 'response_plot', ['pyrocko.plot.response']),
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('pyrocko', 'snuffling', ['pyrocko.gui.snuffling']),
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('pyrocko', 'pile_viewer', ['pyrocko.gui.pile_viewer']),
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('pyrocko', 'marker', ['pyrocko.gui.marker']),
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('pyrocko', 'snuffler', ['pyrocko.gui.snuffler']),
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('pyrocko', 'gui_util', ['pyrocko.gui.util']),
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]
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for (package, compat_module, import_modules) in mapping:
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module_code = '''
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import sys
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import pyrocko
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if pyrocko.grumpy:
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sys.stderr.write('using renamed pyrocko module: %s.%s\\n')
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sys.stderr.write(' -> should now use: %s\\n\\n')
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''' % (package, compat_module, ', '.join(import_modules)) + ''.join(
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['from %s import *\n' % module for module in import_modules])
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outfile = self.get_module_outfile(
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self.build_lib, package.split('.'), compat_module)
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dir = os.path.dirname(outfile)
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self.mkpath(dir)
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with open(outfile, 'w') as f:
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f.write(module_code)
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def run(self):
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make_info_module(packname, version)
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self.make_compat_modules()
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build_py.run(self)
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class CustomBuildExtCommand(build_ext):
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def run(self):
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make_prerequisites()
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build_ext.run(self)
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class CustomBuildAppCommand(build_ext):
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def run(self):
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self.make_app()
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def make_app(self):
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import glob
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import os
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import shutil
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from setuptools import setup
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APP = ['apps/snuffler']
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DATA_FILES = []
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OPTIONS = {
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'argv_emulation': True,
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'iconfile': 'src/data/snuffler.icns',
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'packages': 'pyrocko',
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'excludes': [
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'PyQt4.QtDesigner',
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'PyQt4.QtScript',
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'PyQt4.QtScriptTools',
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'PyQt4.QtTest',
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'PyQt4.QtCLucene',
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'PyQt4.QtDeclarative',
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'PyQt4.QtHelp',
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'PyQt4.QtSql',
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'PyQt4.QtTest',
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'PyQt4.QtXml',
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'PyQt4.QtXmlPatterns',
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'PyQt4.QtMultimedia',
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'PyQt4.phonon',
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'matplotlib.tests',
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'matplotlib.testing'],
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'plist': 'src/data/Info.plist'}
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setup(
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app=APP,
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data_files=DATA_FILES,
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options={'py2app': OPTIONS},
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setup_requires=['py2app'],
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)
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# Manually delete files which refuse to be ignored using 'excludes':
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want_delete = glob.glob(
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'dist/snuffler.app/Contents/Frameworks/libvtk*')
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map(os.remove, want_delete)
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want_delete_dir = glob.glob(
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'dist/Snuffler.app/Contents/Resources/lib/python2.7/'
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'matplotlib/test*')
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map(shutil.rmtree, want_delete_dir)
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|
|
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def _check_for_openmp():
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"""Check whether the default compiler supports OpenMP.
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This routine is adapted from pynbody // yt.
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Thanks to Nathan Goldbaum and Andrew Pontzen.
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"""
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import distutils.sysconfig
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import subprocess
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tmpdir = tempfile.mkdtemp(prefix='pyrocko')
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compiler = os.environ.get(
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'CC', distutils.sysconfig.get_config_var('CC')).split()[0]
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# Attempt to compile a test script.
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# See http://openmp.org/wp/openmp-compilers/
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tmpfile = op.join(tmpdir, 'check_openmp.c')
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with open(tmpfile, 'w') as f:
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f.write('''
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#include <omp.h>
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#include <stdio.h>
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int main() {
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#pragma omp parallel
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printf("Hello from thread %d", omp_get_thread_num());
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}
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''')
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try:
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with open(os.devnull, 'w') as fnull:
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exit_code = subprocess.call([compiler, '-fopenmp', '-o%s'
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% op.join(tmpdir, 'check_openmp'),
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tmpfile],
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stdout=fnull, stderr=fnull)
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except OSError:
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exit_code = 1
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finally:
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shutil.rmtree(tmpdir)
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|
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if exit_code == 0:
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print('Continuing your build using OpenMP...')
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return True
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import multiprocessing
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|
import platform
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|
if multiprocessing.cpu_count() > 1:
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print('''WARNING
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|
OpenMP support is not available in your default C compiler, even though
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your machine has more than one core available.
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|
Some routines in pyrocko are parallelized using OpenMP and these will
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only run on one core with your current configuration.
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''')
|
|
if platform.uname()[0] == 'Darwin':
|
|
print('''Since you are running on Mac OS, it's likely that the problem here
|
|
is Apple's Clang, which does not support OpenMP at all. The easiest
|
|
way to get around this is to download the latest version of gcc from
|
|
here: http://hpc.sourceforge.net. After downloading, just point the
|
|
CC environment variable to the real gcc and OpenMP support should
|
|
get enabled automatically. Something like this -
|
|
sudo tar -xzf /path/to/download.tar.gz /
|
|
export CC='/usr/local/bin/gcc'
|
|
python setup.py clean
|
|
python setup.py build
|
|
''')
|
|
print('Continuing your build without OpenMP...')
|
|
return False
|
|
|
|
|
|
if _check_for_openmp():
|
|
omp_arg = ['-fopenmp']
|
|
omp_lib = ['-lgomp']
|
|
else:
|
|
omp_arg = []
|
|
omp_lib = []
|
|
|
|
|
|
subpacknames = [
|
|
'pyrocko.gf',
|
|
'pyrocko.fomosto',
|
|
'pyrocko.fomosto.report',
|
|
'pyrocko.client',
|
|
'pyrocko.apps',
|
|
'pyrocko.io',
|
|
'pyrocko.model',
|
|
'pyrocko.plot',
|
|
'pyrocko.gui',
|
|
'pyrocko.gui.snufflings',
|
|
'pyrocko.gui.snufflings.map',
|
|
'pyrocko.dataset',
|
|
'pyrocko.dataset.topo',
|
|
'pyrocko.streaming',
|
|
'pyrocko.scenario',
|
|
'pyrocko.scenario.targets',
|
|
'pyrocko.scenario.sources',
|
|
'pyrocko.obspy_compat',
|
|
]
|
|
|
|
|
|
setup(
|
|
cmdclass={
|
|
'install': CustomInstallCommand,
|
|
'build_py': CustomBuildPyCommand,
|
|
# 'py2app': CustomBuildAppCommand,
|
|
'build_ext': CustomBuildExtCommand,
|
|
'check_multiple_install': CheckInstalls,
|
|
'install_prerequisites': InstallPrerequisits,
|
|
'uninstall': Uninstall,
|
|
},
|
|
|
|
name=packname,
|
|
version=version,
|
|
description='A versatile seismology toolkit for Python.',
|
|
long_description=open('maintenance/readme-pip.rst', 'rb').read().decode('utf8'),
|
|
author='The Pyrocko Developers',
|
|
author_email='info@pyrocko.org',
|
|
url='https://pyrocko.org',
|
|
license='GPLv3',
|
|
classifiers=[
|
|
'License :: OSI Approved :: GNU General Public License v3 (GPLv3)',
|
|
'Development Status :: 5 - Production/Stable',
|
|
'Intended Audience :: Science/Research',
|
|
'Programming Language :: Python :: 2.7',
|
|
'Programming Language :: Python :: 3',
|
|
'Programming Language :: C',
|
|
'Programming Language :: Python :: Implementation :: CPython',
|
|
'Operating System :: POSIX',
|
|
'Operating System :: MacOS',
|
|
'Topic :: Scientific/Engineering',
|
|
'Topic :: Scientific/Engineering :: Physics',
|
|
'Topic :: Scientific/Engineering :: Visualization',
|
|
'Topic :: Scientific/Engineering :: Information Analysis',
|
|
'Topic :: Software Development :: Libraries :: Application Frameworks',
|
|
],
|
|
keywords=[
|
|
'seismology, waveform analysis, earthquake modelling, geophysics,'
|
|
' geophysical inversion'],
|
|
python_requires='>=2.7, !=3.0.*, !=3.1.*, !=3.2.*, <4',
|
|
install_requires=[],
|
|
|
|
extras_require={
|
|
'gui_scripts': ['PyQt4'],
|
|
},
|
|
|
|
packages=[packname] + subpacknames,
|
|
package_dir={'pyrocko': 'src'},
|
|
ext_package=packname,
|
|
ext_modules=[
|
|
Extension(
|
|
'util_ext',
|
|
extra_compile_args=['-Wextra'],
|
|
sources=[op.join('src', 'ext', 'util_ext.c')]),
|
|
|
|
Extension(
|
|
'signal_ext',
|
|
include_dirs=[get_python_inc(), numpy.get_include()],
|
|
extra_compile_args=['-Wextra'],
|
|
sources=[op.join('src', 'ext', 'signal_ext.c')]),
|
|
|
|
Extension(
|
|
'mseed_ext',
|
|
include_dirs=[get_python_inc(), numpy.get_include(),
|
|
get_build_include('libmseed/')],
|
|
library_dirs=[get_build_include('libmseed/')],
|
|
libraries=['mseed'],
|
|
extra_compile_args=['-Wextra'],
|
|
sources=[op.join('src', 'io', 'ext', 'mseed_ext.c')]),
|
|
|
|
Extension(
|
|
'evalresp_ext',
|
|
include_dirs=[get_python_inc(), numpy.get_include(),
|
|
get_build_include('evalresp-3.3.0/include/')],
|
|
library_dirs=[get_build_include('evalresp-3.3.0/lib/')],
|
|
libraries=['evresp'],
|
|
extra_compile_args=[
|
|
'-Wextra',
|
|
'-I%s' % get_build_include('evalresp-3.3.0/include')],
|
|
sources=[op.join('src', 'ext', 'evalresp_ext.c')]),
|
|
|
|
Extension(
|
|
'ims_ext',
|
|
include_dirs=[get_python_inc(), numpy.get_include()],
|
|
extra_compile_args=['-Wextra'],
|
|
sources=[op.join('src', 'io', 'ext', 'ims_ext.c')]),
|
|
|
|
Extension(
|
|
'datacube_ext',
|
|
include_dirs=[get_python_inc(), numpy.get_include()],
|
|
extra_compile_args=['-Wextra'],
|
|
sources=[op.join('src', 'io', 'ext', 'datacube_ext.c')]),
|
|
|
|
Extension(
|
|
'autopick_ext',
|
|
include_dirs=[get_python_inc(), numpy.get_include()],
|
|
extra_compile_args=['-Wextra'],
|
|
sources=[op.join('src', 'ext', 'autopick_ext.c')]),
|
|
|
|
Extension(
|
|
'gf.store_ext',
|
|
include_dirs=[get_python_inc(), numpy.get_include()],
|
|
extra_compile_args=['-D_FILE_OFFSET_BITS=64', '-Wextra'] + omp_arg,
|
|
extra_link_args=[] + omp_lib,
|
|
sources=[op.join('src', 'gf', 'ext', 'store_ext.c')]),
|
|
|
|
Extension(
|
|
'eikonal_ext',
|
|
include_dirs=[get_python_inc(), numpy.get_include()],
|
|
extra_compile_args=['-Wextra'] + omp_arg,
|
|
extra_link_args=[] + omp_lib,
|
|
sources=[op.join('src', 'ext', 'eikonal_ext.c')]),
|
|
|
|
Extension(
|
|
'parstack_ext',
|
|
include_dirs=[get_python_inc(), numpy.get_include()],
|
|
extra_compile_args=['-Wextra'] + omp_arg,
|
|
extra_link_args=[] + omp_lib,
|
|
sources=[op.join('src', 'ext', 'parstack_ext.c')]),
|
|
|
|
Extension(
|
|
'ahfullgreen_ext',
|
|
include_dirs=[get_python_inc(), numpy.get_include()],
|
|
extra_compile_args=['-Wextra'],
|
|
sources=[op.join('src', 'ext', 'ahfullgreen_ext.c')]),
|
|
|
|
Extension(
|
|
'orthodrome_ext',
|
|
include_dirs=[get_python_inc(), numpy.get_include()],
|
|
extra_compile_args=['-Wextra'],
|
|
sources=[op.join('src', 'ext', 'orthodrome_ext.c')]),
|
|
|
|
Extension(
|
|
"avl",
|
|
sources=[op.join('src', 'ext', 'pyavl-1.12', 'avl.c'),
|
|
op.join('src', 'ext', 'pyavl-1.12', 'avlmodule.c')],
|
|
define_macros=[('HAVE_AVL_VERIFY', None),
|
|
('AVL_FOR_PYTHON', None)],
|
|
include_dirs=[get_python_inc()],
|
|
extra_compile_args=['-Wno-parentheses', '-Wno-uninitialized'],
|
|
extra_link_args=[] if sys.platform != 'sunos5' else ['-Wl,-x']),
|
|
],
|
|
|
|
scripts=[
|
|
'src/apps/gmtpy-epstopdf',
|
|
],
|
|
|
|
entry_points={
|
|
'console_scripts':
|
|
['fomosto = pyrocko.apps.fomosto:main',
|
|
'cake = pyrocko.apps.cake:main',
|
|
'automap = pyrocko.apps.automap:main',
|
|
'hamster = pyrocko.apps.hamster:main',
|
|
'jackseis = pyrocko.apps.jackseis:main',
|
|
'colosseo = pyrocko.apps.colosseo:main'],
|
|
'gui_scripts':
|
|
['snuffler = pyrocko.apps.snuffler:main']
|
|
},
|
|
|
|
package_data={
|
|
packname: ['data/*.png',
|
|
'data/*.html',
|
|
'data/earthmodels/*.nd',
|
|
'data/colortables/*.cpt',
|
|
'data/tectonics/*.txt',
|
|
'data/fomosto_report/gfreport.*',
|
|
'gui/snufflings/map/*ml',
|
|
'gui/snufflings/map/*.js',
|
|
] + get_readme_paths()}
|
|
)
|