def invoke(*args, **kwargs):
patch_stdout_stderr()
method_to_call = getattr(args[0], args[1])
return annotationsModifier(generatorModifier(abbreviateStackTrace(lambda: method_to_call(*args[2:], **kwargs))))
def main(path):
patch_stdout_stderr()
path = pkg_resources.normalize_path(path)
moduleInstallationPrefix=path+os.sep+"inst"
localSitePackages=localSitePackageFolder(moduleInstallationPrefix)
addLocalSitePackageToPythonPath(moduleInstallationPrefix)
os.makedirs(localSitePackages)
# The preferred approach to install a package is to use pip...
call_pip('pandas==0.22', localSitePackages)
# # check that the installation worked
# addLocalSitePackageToPythonPath(moduleInstallationPrefix)
# import pandas# This fails intermittently
# ...but - for some reason - pip breaks when we install the python synapse client
# So we use 'setup' directly
packageName = "synapseclient-1.9.2"
if 'PYTHON_CLIENT_GITHUB_USERNAME' in os.environ and 'PYTHON_CLIENT_GITHUB_BRANCH' in os.environ:
pythonClientGithubUsername = os.environ['PYTHON_CLIENT_GITHUB_USERNAME']
pythonClientGithubBranch = os.environ['PYTHON_CLIENT_GITHUB_BRANCH']
archivePrefix="synapsePythonClient-"+pythonClientGithubBranch
archiveSuffix=".zip"
url="https://github.com/"+pythonClientGithubUsername+"/synapsePythonClient/archive/"+pythonClientGithubBranch+archiveSuffix
else:
archivePrefix=packageName
urlPrefix = "https://files.pythonhosted.org/packages/ed/fb/67055be256b6b0906d5627f3f39f5ba8db5737162ce619c04e8f9c2c2848/"
archiveSuffix = ".tar.gz"
url = urlPrefix+archivePrefix+archiveSuffix
installPackage(packageName, url, archivePrefix, archiveSuffix, path, moduleInstallationPrefix)
# check that the installation worked
addLocalSitePackageToPythonPath(moduleInstallationPrefix)
import synapseclient
# When trying to 'synStore' a table we get the error:
# pandas.Styler requires jinja2. Please install with `conda install Jinja2`
# So let's install Jinja2 here:
# https://stackoverflow.com/questions/43163201/pyinstaller-syntax-error-yield-inside-async-function-python-3-5-1
# Jinja2 depends on MarkupSafe
packageName = "MarkupSafe-1.0"
linkPrefix = "https://pypi.python.org/packages/4d/de/32d741db316d8fdb7680822dd37001ef7a448255de9699ab4bfcbdf4172b/"
installedPackageFolderName="markupsafe"
simplePackageInstall(packageName, installedPackageFolderName, linkPrefix, path, localSitePackages)
addLocalSitePackageToPythonPath(moduleInstallationPrefix)
#import markupsafe # This fails intermittently
packageName = "Jinja2-2.8.1"
linkPrefix = "https://pypi.python.org/packages/5f/bd/5815d4d925a2b8cbbb4b4960f018441b0c65f24ba29f3bdcfb3c8218a307/"
installedPackageFolderName="jinja2"
simplePackageInstall(packageName, installedPackageFolderName, linkPrefix, path, localSitePackages)
addLocalSitePackageToPythonPath(moduleInstallationPrefix)
def main(path):
patch_stdout_stderr()
path = pkg_resources.normalize_path(path)
moduleInstallationPrefix = path + os.sep + "inst"
localSitePackages = localSitePackageFolder(moduleInstallationPrefix)
addLocalSitePackageToPythonPath(moduleInstallationPrefix)
os.makedirs(localSitePackages)
# The preferred approach to install a package is to use pip...
call_pip('pandas==0.22', localSitePackages)
# # check that the installation worked
# addLocalSitePackageToPythonPath(moduleInstallationPrefix)
# import pandas# This fails intermittently
# ...but - for some reason - pip breaks when we install the python synapse client
# So we use 'setup' directly
packageName = "synapseclient-1.9.3"
if 'PYTHON_CLIENT_GITHUB_USERNAME' in os.environ and 'PYTHON_CLIENT_GITHUB_BRANCH' in os.environ:
pythonClientGithubUsername = os.environ[
'PYTHON_CLIENT_GITHUB_USERNAME']
pythonClientGithubBranch = os.environ['PYTHON_CLIENT_GITHUB_BRANCH']
archivePrefix = "synapsePythonClient-" + pythonClientGithubBranch
archiveSuffix = ".zip"
url = "https://github.com/" + pythonClientGithubUsername + "/synapsePythonClient/archive/" + pythonClientGithubBranch + archiveSuffix
else:
archivePrefix = packageName
urlPrefix = "https://files.pythonhosted.org/packages/8d/00/d64d0887f5f215f19cf57789ea43d757c9576d343e96a62e6af23a201091/"
archiveSuffix = ".tar.gz"
url = urlPrefix + archivePrefix + archiveSuffix
installPackage(packageName, url, archivePrefix, archiveSuffix, path,
moduleInstallationPrefix)
# check that the installation worked
addLocalSitePackageToPythonPath(moduleInstallationPrefix)
import synapseclient
# When trying to 'synStore' a table we get the error:
# pandas.Styler requires jinja2. Please install with `conda install Jinja2`
# So let's install Jinja2 here:
# https://stackoverflow.com/questions/43163201/pyinstaller-syntax-error-yield-inside-async-function-python-3-5-1
# Jinja2 depends on MarkupSafe
packageName = "MarkupSafe-1.0"
linkPrefix = "https://pypi.python.org/packages/4d/de/32d741db316d8fdb7680822dd37001ef7a448255de9699ab4bfcbdf4172b/"
installedPackageFolderName = "markupsafe"
simplePackageInstall(packageName, installedPackageFolderName, linkPrefix,
path, localSitePackages)
addLocalSitePackageToPythonPath(moduleInstallationPrefix)
#import markupsafe # This fails intermittently
packageName = "Jinja2-2.8.1"
linkPrefix = "https://pypi.python.org/packages/5f/bd/5815d4d925a2b8cbbb4b4960f018441b0c65f24ba29f3bdcfb3c8218a307/"
installedPackageFolderName = "jinja2"
simplePackageInstall(packageName, installedPackageFolderName, linkPrefix,
path, localSitePackages)
addLocalSitePackageToPythonPath(moduleInstallationPrefix)
def stdouterrCapture(function, abbreviateStackTrace=False):
patch_stdout_stderr()
return function()
def main(path):
patch_stdout_stderr()
path = pkg_resources.normalize_path(path)
moduleInstallationPrefix = path + os.sep + "inst"
localSitePackages = localSitePackageFolder(moduleInstallationPrefix)
addLocalSitePackageToPythonPath(moduleInstallationPrefix)
os.makedirs(localSitePackages)
# the least error prone way to install packages at runtime is by invoking
# pip via a subprocess, although it's not straightforward to do so here.
for package in (
'pandas==0.22',
# we install requests up front because it's a dependency of synapseclient anyway
# but also comes with certifi which will give us some root CA certs which aren't
# available otherwise on MacOS on python > 3.6 due to openssl changes
# and which we'll need to exercise the branch build option below if since we
# download via https.
'requests>=2.22.0',
):
pip_install(package, localSitePackages)
if 'PYTHON_CLIENT_GITHUB_USERNAME' in os.environ and 'PYTHON_CLIENT_GITHUB_BRANCH' in os.environ:
# install via a branch, development option
pythonClientGithubUsername = os.environ[
'PYTHON_CLIENT_GITHUB_USERNAME']
pythonClientGithubBranch = os.environ['PYTHON_CLIENT_GITHUB_BRANCH']
archivePrefix = "synapsePythonClient-" + pythonClientGithubBranch
archiveSuffix = ".zip"
url = "https://github.com/" + pythonClientGithubUsername + "/synapsePythonClient/archive/" + pythonClientGithubBranch + archiveSuffix
installPackage(
"{}-{}".format(SYNAPSE_CLIENT_PACKAGE_NAME,
SYNAPSE_CLIENT_PACKAGE_VERSION),
url,
archivePrefix,
archiveSuffix,
path,
moduleInstallationPrefix,
)
else:
# if not installing from a branch, install the package via pip
pip_install(
"synapseclient[{}]=={}".format(
os.environ.get('SYNAPSE_PYTHON_CLIENT_EXTRAS', ''),
SYNAPSE_CLIENT_PACKAGE_VERSION), localSitePackages)
# check that the installation worked
addLocalSitePackageToPythonPath(moduleInstallationPrefix)
import synapseclient
if platform.system() != 'Windows':
# on linux and mac we can install these via a pip subprocess...
for package in (
"MarkupSafe=={}".format(MARKUPSAFE_VERSION),
"Jinja2=={}".format(JINJA_VERSION),
):
pip_install(package, localSitePackages)
else:
# ...but on windows installing via a subprocess breaks seemingly with the wheel install,
# so we use the creative sideloading as below.
# Jinja2 depends on MarkupSafe
packageName = "MarkupSafe-{}".format(MARKUPSAFE_VERSION)
linkPrefix = "https://files.pythonhosted.org/packages/b9/2e/64db92e53b86efccfaea71321f597fa2e1b2bd3853d8ce658568f7a13094/"
installedPackageFolderName = "markupsafe"
simplePackageInstall(packageName, installedPackageFolderName,
linkPrefix, path, localSitePackages)
addLocalSitePackageToPythonPath(moduleInstallationPrefix)
#import markupsafe # This fails intermittently
packageName = "Jinja2-{}".format(JINJA_VERSION)
linkPrefix = "https://files.pythonhosted.org/packages/64/a7/45e11eebf2f15bf987c3bc11d37dcc838d9dc81250e67e4c5968f6008b6c/"
installedPackageFolderName = "jinja2"
simplePackageInstall(packageName, installedPackageFolderName,
linkPrefix, path, localSitePackages)
addLocalSitePackageToPythonPath(moduleInstallationPrefix)
#import jinja2 # This fails intermittently
addLocalSitePackageToPythonPath(moduleInstallationPrefix)