def prepare_step(self, *args, **kwargs):
"""Prepare environment for installing OpenCV."""
super(EB_OpenCV, self).prepare_step(*args, **kwargs)
self.pylibdir = det_pylibdir()
ippicv_tgz = glob.glob(os.path.join(self.builddir, 'ippicv*.tgz'))
if ippicv_tgz:
if len(ippicv_tgz) == 1:
# copy ippicv tarball in the right place
# expected location is 3rdparty/ippicv/downloads/linux-<md5sum>/
ippicv_tgz = ippicv_tgz[0]
ippicv_tgz_md5 = compute_checksum(ippicv_tgz,
checksum_type='md5')
target_subdir = os.path.join('3rdparty', 'ippicv', 'downloads',
'linux-%s' % ippicv_tgz_md5)
copy([ippicv_tgz],
os.path.join(self.cfg['start_dir'], target_subdir))
self.cfg.update('configopts', '-DWITH_IPP=ON')
else:
raise EasyBuildError(
"Found multiple ippicv*.tgz source tarballs in %s: %s",
self.builddir, ippicv_tgz)
def install_step(self):
"""Install python but only keep the bits we need"""
super(EB_Tkinter, self).install_step()
tmpdir = tempfile.mkdtemp(dir=self.builddir)
self.tkinter_so_basename = self.get_tkinter_so_basename(False)
if LooseVersion(self.version) >= LooseVersion('3'):
tkparts = [
"tkinter",
os.path.join("lib-dynload", self.tkinter_so_basename)
]
else:
tkparts = [
"lib-tk",
os.path.join("lib-dynload", self.tkinter_so_basename)
]
pylibdir = os.path.join(self.installdir, det_pylibdir())
copy([os.path.join(os.path.dirname(pylibdir), x) for x in tkparts],
tmpdir)
remove_dir(self.installdir)
move_file(os.path.join(tmpdir, tkparts[0]),
os.path.join(pylibdir, tkparts[0]))
move_file(os.path.join(tmpdir, self.tkinter_so_basename),
os.path.join(pylibdir, self.tkinter_so_basename))
def install_step(self):
"""Install python but only keep the bits we need"""
super(EB_Tkinter, self).install_step()
tmpdir = tempfile.mkdtemp(dir=self.builddir)
pylibdir = os.path.join(self.installdir, os.path.dirname(det_pylibdir()))
shlib_ext = get_shared_lib_ext()
tkinter_so = os.path.join(pylibdir, 'lib-dynload', '_tkinter*.' + shlib_ext)
tkinter_so_hits = glob.glob(tkinter_so)
if len(tkinter_so_hits) != 1:
raise EasyBuildError("Expected to find exactly one _tkinter*.so: %s", tkinter_so_hits)
self.tkinter_so_basename = os.path.basename(tkinter_so_hits[0])
if LooseVersion(self.version) >= LooseVersion('3'):
tkparts = ["tkinter", os.path.join("lib-dynload", self.tkinter_so_basename)]
else:
tkparts = ["lib-tk", os.path.join("lib-dynload", self.tkinter_so_basename)]
copy([os.path.join(pylibdir, x) for x in tkparts], tmpdir)
rmtree2(self.installdir)
mkdir(pylibdir, parents=True)
try:
shutil.move(os.path.join(tmpdir, tkparts[0]), pylibdir)
shutil.move(os.path.join(tmpdir, os.path.basename(tkparts[1])), pylibdir)
except (IOError, OSError) as err:
raise EasyBuildError("Failed to move Tkinter back to the install directory: %s", err)
def prepare_step(self, *args, **kwargs):
"""Prepare environment for installing OpenCV."""
super(EB_OpenCV, self).prepare_step(*args, **kwargs)
self.pylibdir = det_pylibdir()
if get_cpu_architecture() == X86_64:
# IPP are Intel's Integrated Performance Primitives - so only make sense on X86_64
ippicv_tgz = glob.glob(os.path.join(self.builddir, 'ippicv*.tgz'))
if ippicv_tgz:
if len(ippicv_tgz) == 1:
# copy ippicv tarball in the right place
# expected location is 3rdparty/ippicv/downloads/linux-<md5sum>/
ippicv_tgz = ippicv_tgz[0]
ippicv_tgz_md5 = compute_checksum(ippicv_tgz,
checksum_type='md5')
target_subdir = os.path.join('3rdparty', 'ippicv',
'downloads',
'linux-%s' % ippicv_tgz_md5)
copy([ippicv_tgz],
os.path.join(self.cfg['start_dir'], target_subdir))
self.cfg.update('configopts', '-DWITH_IPP=ON')
# for recent OpenCV 3.x versions (and newer), we must also specify the download location
# to prevent that the ippicv tarball is re-downloaded
if LooseVersion(self.version) >= LooseVersion('3.4.4'):
self.cfg.update(
'configopts',
'-DOPENCV_DOWNLOAD_PATH=%s' % self.builddir)
else:
raise EasyBuildError(
"Found multiple ippicv*.tgz source tarballs in %s: %s",
self.builddir, ippicv_tgz)
def install_step(self):
"""
Custom installation procedure for OpenCV: also copy IPP library into lib subdirectory of installation directory.
"""
super(EB_OpenCV, self).install_step()
if 'WITH_IPP=ON' in self.cfg['configopts']:
ipp_libs = glob.glob(os.path.join('3rdparty', 'ippicv', 'ippicv_lnx', 'lib', 'intel64', 'libippicv.*'))
copy(ipp_libs, os.path.join(self.installdir, 'lib'))
def install_step(self):
"""Install Boost by copying files to install dir."""
self.log.info("Copying %s to installation dir %s", self.objdir, self.installdir)
if self.cfg['only_python_bindings'] and 'Python' in self.cfg['multi_deps'] and self.iter_idx > 0:
self.log.info("Main installation should already exist, only copying over missing Python libraries.")
copy(glob.glob(os.path.join(self.objdir, 'lib', 'libboost_python*')), os.path.join(self.installdir, 'lib'))
else:
copy(glob.glob(os.path.join(self.objdir, '*')), self.installdir)
def install_step(self):
"""Custom install step for Scipion."""
copy(['config', 'pyworkflow', 'scipion', 'software'], self.installdir)
datadir = os.path.join(self.installdir, 'data', 'tests')
mkdir(datadir, parents=True)
mkdir(os.path.join(self.installdir, 'bin'))
linktarget = os.path.join(self.installdir, 'bin', 'scipion')
symlink(os.path.join('..', 'scipion'),
linktarget,
use_abspath_source=False)
def install_step(self):
"""
Custom installation procedure for OpenCV: also copy IPP library into lib subdirectory of installation directory.
"""
super(EB_OpenCV, self).install_step()
if 'WITH_IPP=ON' in self.cfg['configopts']:
ipp_libs = glob.glob(
os.path.join('3rdparty', 'ippicv', 'ippicv_lnx', 'lib',
'intel64', 'libippicv.*'))
copy(ipp_libs, os.path.join(self.installdir, 'lib'))
def install_step(self):
"""
Custom installation procedure for OpenCV: also copy IPP library into lib subdirectory of installation directory.
"""
super(EB_OpenCV, self).install_step()
if 'WITH_IPP=ON' in self.cfg['configopts']:
common_dir = os.path.join('3rdparty', 'ippicv', 'ippicv_lnx')
# for some recent OpenCV 3.x versions, libippicv.a is now in a subdirectory named 'icv'
if LooseVersion(self.version) >= LooseVersion('3.4.4'):
ipp_libs = glob.glob(os.path.join(common_dir, 'icv', 'lib', 'intel64', 'libippicv.*'))
else:
ipp_libs = glob.glob(os.path.join(common_dir, 'lib', 'intel64', 'libippicv.*'))
copy(ipp_libs, os.path.join(self.installdir, 'lib'))
def install_step(self):
"""Custom install step for netpbm."""
# Preinstallation to a tmp directory. Can't install directly to installdir because the make command fails if the
# directory already exists
cmd = "make package pkgdir=%s/pkg" % self.builddir
(out, _) = run_cmd(cmd, log_all=True, simple=False)
# Move things to installdir
copy(["%s/pkg/%s" % (self.builddir, x) for x in os.listdir("%s/pkg/" % self.builddir)], self.installdir)
# Need to do manually the last bits of the installation
configs = [
("%s/config_template" % self.installdir, "%s/bin/netpbm-config" % self.installdir),
("%s/pkgconfig_template" % self.installdir, "%s/lib/pkgconfig/netpbm.pc" % self.installdir)
]
mkdir("%s/lib/pkgconfig" % self.installdir)
for template, config_file in configs:
move_file(template, config_file)
for line in fileinput.input(config_file, inplace=1, backup='.orig'):
if re.match(r"^@", line):
continue
else:
line = re.sub(r'@VERSION@', 'Netpbm %s' % self.version, line)
line = re.sub(r'@DATADIR@', '%s/lib' % self.installdir, line)
line = re.sub(r'@LINKDIR@', '%s/lib' % self.installdir, line)
line = re.sub(r'@INCLUDEDIR@', '%s/include' % self.installdir, line)
line = re.sub(r'@BINDIR@', '%s/bin' % self.installdir, line)
sys.stdout.write(line)
adjust_permissions("%s/bin/netpbm-config" % self.installdir, stat.S_IXUSR | stat.S_IXGRP | stat.S_IXOTH)
move_file("%s/link/libnetpbm.a" % self.installdir, "%s/lib/libnetpbm.a" % self.installdir)
symlink("%s/lib/libnetpbm.so.11" % self.installdir, "%s/lib/libnetpbm.so" % self.installdir)
for f in os.listdir("%s/misc/" % self.installdir):
move_file("%s/misc/%s" % (self.installdir, f), "%s/lib/%s" % (self.installdir, f))
rmtree2("%s/misc/" % self.installdir)
rmtree2("%s/link/" % self.installdir)
headers = os.listdir("%s/include/netpbm" % self.installdir)
for header in headers:
symlink("%s/include/netpbm/%s" % (self.installdir, header), "%s/include/%s" % (self.installdir, header))
return out
def prepare_step(self, *args, **kwargs):
"""Prepare environment for installing OpenCV."""
super(EB_OpenCV, self).prepare_step(*args, **kwargs)
self.pylibdir = det_pylibdir()
ippicv_tgz = glob.glob(os.path.join(self.builddir, 'ippicv*.tgz'))
if ippicv_tgz:
if len(ippicv_tgz) == 1:
# copy ippicv tarball in the right place
# expected location is 3rdparty/ippicv/downloads/linux-<md5sum>/
ippicv_tgz = ippicv_tgz[0]
ippicv_tgz_md5 = compute_checksum(ippicv_tgz, checksum_type='md5')
target_subdir = os.path.join('3rdparty', 'ippicv', 'downloads', 'linux-%s' % ippicv_tgz_md5)
copy([ippicv_tgz], os.path.join(self.cfg['start_dir'], target_subdir))
self.cfg.update('configopts', '-DWITH_IPP=ON')
else:
raise EasyBuildError("Found multiple ippicv*.tgz source tarballs in %s: %s", self.builddir, ippicv_tgz)
def install_step(self):
"""Install python but only keep the bits we need"""
super(EB_Tkinter, self).install_step()
tmpdir = tempfile.mkdtemp(dir=self.builddir)
pylibdir = os.path.join(self.installdir,
os.path.dirname(det_pylibdir()))
shlib_ext = get_shared_lib_ext()
tkinter_so = os.path.join(pylibdir, 'lib-dynload',
'_tkinter*.' + shlib_ext)
tkinter_so_hits = glob.glob(tkinter_so)
if len(tkinter_so_hits) != 1:
raise EasyBuildError(
"Expected to find exactly one _tkinter*.so: %s",
tkinter_so_hits)
self.tkinter_so_basename = os.path.basename(tkinter_so_hits[0])
if LooseVersion(self.version) >= LooseVersion('3'):
tkparts = [
"tkinter",
os.path.join("lib-dynload", self.tkinter_so_basename)
]
else:
tkparts = [
"lib-tk",
os.path.join("lib-dynload", self.tkinter_so_basename)
]
copy([os.path.join(pylibdir, x) for x in tkparts], tmpdir)
rmtree2(self.installdir)
mkdir(pylibdir, parents=True)
try:
shutil.move(os.path.join(tmpdir, tkparts[0]), pylibdir)
shutil.move(os.path.join(tmpdir, os.path.basename(tkparts[1])),
pylibdir)
except (IOError, OSError) as err:
raise EasyBuildError(
"Failed to move Tkinter back to the install directory: %s",
err)
def install_step(self):
"Install NVIDIA libs simply by copying files. We can't user the installer because it requires root privileges."
# list of libs
libs = expand_glob_paths([os.path.join(self.libsdir, 'lib*.so*')])
libs += expand_glob_paths([os.path.join(self.libsdir, '*.la')])
libs += [os.path.join(self.libsdir, 'nvidia_drv.so')]
# list of binaries
binaries = ['nvidia-bug-report.sh',
'nvidia-cuda-mps-control',
'nvidia-cuda-mps-server',
'nvidia-debugdump',
'nvidia-settings',
'nvidia-smi',
'nvidia-xconfig']
binaries = [os.path.join(self.libsdir, x) for x in binaries]
# list of manpages
manpages = ['nvidia-settings.1.gz',
'nvidia-cuda-mps-control.1.gz',
'nvidia-xconfig.1.gz',
'nvidia-smi.1.gz']
manpages = [os.path.join(self.libsdir, x) for x in manpages]
copy(libs, os.path.join(self.installdir, 'lib64'))
copy(binaries, os.path.join(self.installdir, 'bin'))
copy(manpages, os.path.join(self.installdir, 'man', 'man1'))
def install_step(self):
"""Custom install procedure for MRtrix."""
if LooseVersion(self.version) < LooseVersion('0.3'):
cmd = "python build -verbose install=%s linkto=" % self.installdir
run_cmd(cmd, log_all=True, simple=True, log_ok=True)
elif LooseVersion(self.version) >= LooseVersion('3.0'):
copy(os.path.join(self.builddir, 'bin'), self.installdir)
copy(os.path.join(self.builddir, 'lib'), self.installdir)
elif LooseVersion(self.version) >= LooseVersion('0.3.14'):
copy(glob.glob(os.path.join(self.builddir, 'release', '*')), self.installdir)
copy(os.path.join(self.builddir, 'scripts'), self.installdir)
# some scripts expect 'release/bin' to be there, so we put a symlink in place
symlink(self.installdir, os.path.join(self.installdir, 'release'))
def install_step(self):
"""Custom install procedure for MRtrix."""
if LooseVersion(self.version) < LooseVersion('0.3'):
cmd = "python build -verbose install=%s linkto=" % self.installdir
run_cmd(cmd, log_all=True, simple=True, log_ok=True)
elif LooseVersion(self.version) >= LooseVersion('3.0'):
copy(os.path.join(self.builddir, 'bin'), self.installdir)
copy(os.path.join(self.builddir, 'lib'), self.installdir)
elif LooseVersion(self.version) >= LooseVersion('0.3.14'):
copy(glob.glob(os.path.join(self.builddir, 'release', '*')), self.installdir)
copy(os.path.join(self.builddir, 'scripts'), self.installdir)
# some scripts expect 'release/bin' to be there, so we put a symlink in place
symlink(self.installdir, os.path.join(self.installdir, 'release'))
def install_step(self):
"""Install python but only keep the bits we need"""
super(EB_Tkinter, self).install_step()
tmpdir = tempfile.mkdtemp(dir=self.builddir)
pylibdir = os.path.join(self.installdir,
os.path.dirname(det_pylibdir()))
tkparts = ["lib-tk", "lib-dynload/_tkinter.so"]
copy([os.path.join(pylibdir, x) for x in tkparts], tmpdir)
rmtree2(self.installdir)
mkdir(pylibdir, parents=True)
try:
shutil.move(os.path.join(tmpdir, tkparts[0]), pylibdir)
shutil.move(os.path.join(tmpdir, os.path.basename(tkparts[1])),
pylibdir)
except (IOError, OSError) as err:
raise EasyBuildError(
"Failed to move Tkinter back to the install directory: %s",
err)
def install_step(self):
"""Install python but only keep the bits we need"""
super(EB_Tkinter, self).install_step()
tmpdir = tempfile.mkdtemp(dir=self.builddir)
pylibdir = os.path.join(self.installdir,
os.path.dirname(det_pylibdir()))
shlib_ext = get_shared_lib_ext()
tkinter_so = os.path.join(pylibdir, 'lib-dynload',
'_tkinter*.' + shlib_ext)
tkinter_so_hits = glob.glob(tkinter_so)
if len(tkinter_so_hits) != 1:
raise EasyBuildError(
"Expected to find exactly one _tkinter*.so: %s",
tkinter_so_hits)
self.tkinter_so_basename = os.path.basename(tkinter_so_hits[0])
if LooseVersion(self.version) >= LooseVersion('3'):
tkparts = [
"tkinter",
os.path.join("lib-dynload", self.tkinter_so_basename)
]
else:
tkparts = [
"lib-tk",
os.path.join("lib-dynload", self.tkinter_so_basename)
]
copy([os.path.join(pylibdir, x) for x in tkparts], tmpdir)
remove_dir(self.installdir)
move_file(os.path.join(tmpdir, tkparts[0]),
os.path.join(pylibdir, tkparts[0]))
tkinter_so = os.path.basename(tkparts[1])
move_file(os.path.join(tmpdir, tkinter_so),
os.path.join(pylibdir, tkinter_so))
def install_step(self):
"""Install Boost by copying file to install dir."""
self.log.info("Copying %s to installation dir %s" %
(self.objdir, self.installdir))
copy(glob.glob(os.path.join(self.objdir, '*')), self.installdir)
def install_step(self):
"""Install Boost by copying file to install dir."""
self.log.info("Copying %s to installation dir %s" % (self.objdir, self.installdir))
copy(glob.glob(os.path.join(self.objdir, '*')), self.installdir)
