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Computational Crystallography Toolbox
https://cci.lbl.gov/docs/cctbx
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Install only libtbx.easy_mp #180

Open sarahbuzz opened 6 years ago

sarahbuzz commented 6 years ago

Hello,

I'm interested in integrating the libtbx.easy_mp module into a code I'm writing to parallel on an SGE cluster. I'm attempting to install the entire project (python boostrap.py) but I get a RuntimeError when Xrender is installing:

Installing Xrender... log file is /home/sbusby/Downloads/cctbx/base_tmp/Xrender_install_log getting package libXrender-0.9.7.tar.gz... downloading from http://cci.lbl.gov/cctbx_dependencies : 348.9 kB [0%.........20%.........40%.........60%.........80%.........100%] installing libXrender-0.9.7.tar.gz... Traceback (most recent call last): File "modules/cctbx_project/libtbx/auto_build/install_base_packages.py", line 1636, in <module> installer(args=sys.argv, log=sys.stdout) File "modules/cctbx_project/libtbx/auto_build/install_base_packages.py", line 247, in __init__ self.build_dependencies(packages=packages) File "modules/cctbx_project/libtbx/auto_build/install_base_packages.py", line 759, in build_dependencies getattr(self, 'build_%s'%i)() File "modules/cctbx_project/libtbx/auto_build/install_base_packages.py", line 1337, in build_render self.build_compiled_package_simple(pkg_name=pkg, pkg_name_label=name) File "modules/cctbx_project/libtbx/auto_build/install_base_packages.py", line 576, in build_compiled_package_simple self.configure_and_build(config_args=config_args, log=pkg_log) File "modules/cctbx_project/libtbx/auto_build/install_base_packages.py", line 557, in configure_and_build self.call("./%s %s" % (configure, " ".join(list(config_args))), log=log) File "modules/cctbx_project/libtbx/auto_build/install_base_packages.py", line 345, in call return call(args, log=log, verbose=self.verbose, **kwargs) File "/home/sbusby/Downloads/cctbx/modules/cctbx_project/libtbx/auto_build/installer_utils.py", line 53, in call raise RuntimeError("Call to '%s' failed with exit code %d" % (args, rc)) RuntimeError: Call to './configure --prefix="/home/sbusby/Downloads/cctbx/base"' failed with exit code 1 Process failed with return code 1

I don't need all the extra modules provided in CCTBX. Is there a way to just install/use the libtbx.easy_mp package?

I'm on a Debian OS (jessie).

bkpoon commented 6 years ago

Hi,

You're probably just missing the Xorg server development files. I think the package is called xorg-dev on Debian.

As an alternative, you can download a binary installation from http://cci.lbl.gov/cctbx_build/dev-1380/ and use libtbx.easy_mp from that installation. The CentOS 6 build should work with Jessie.

-- Billy K. Poon Research Scientist, Molecular Biophysics and Integrated Bioimaging Lawrence Berkeley National Laboratory 1 Cyclotron Road, M/S 33R0345 Berkeley, CA 94720 Tel: (510) 486-5709 Fax: (510) 486-5909 Web: https://phenix-online.org

On Fri, Apr 20, 2018 at 1:20 PM, sarahbuzz notifications@github.com wrote:

Hello,

I'm interested in integrating the libtbx.easy_mp module into a code I'm writing to parallel on an SGE cluster. I'm attempting to install the entire project (python boostrap.py) but I get a RuntimeError when Xrender is installing:

Installing Xrender... log file is /home/sbusby/Downloads/cctbx/base_tmp/Xrender_install_log getting package libXrender-0.9.7.tar.gz... downloading from http://cci.lbl.gov/cctbx_dependencies : 348.9 kB [0%.........20%.........40%.........60%.........80%.........100%] installing libXrender-0.9.7.tar.gz... Traceback (most recent call last): File "modules/cctbx_project/libtbx/auto_build/install_base_packages.py", line 1636, in installer(args=sys.argv, log=sys.stdout) File "modules/cctbx_project/libtbx/auto_build/install_base_packages.py", line 247, in init self.build_dependencies(packages=packages) File "modules/cctbx_project/libtbx/auto_build/install_base_packages.py", line 759, in builddependencies getattr(self, 'build%s'%i)() File "modules/cctbx_project/libtbx/auto_build/install_base_packages.py", line 1337, in build_render self.build_compiled_package_simple(pkg_name=pkg, pkg_name_label=name) File "modules/cctbx_project/libtbx/ auto_build/install_base_packages.py", line 576, in build_compiled_package_simple self.configure_and_build(config_args=config_args, log=pkg_log) File "modules/cctbx_project/libtbx/auto_build/install_base_packages.py", line 557, in configure_and_build self.call("./%s %s" % (configure, " ".join(list(config_args))), log=log) File "modules/cctbx_project/libtbx/ auto_build/install_base_packages.py", line 345, in call return call(args, log=log, verbose=self.verbose, **kwargs) File "/home/sbusby/Downloads/cctbx/ modules/cctbx_project/libtbx/auto_build/installer_utils.py", line 53, in call raise RuntimeError("Call to '%s' failed with exit code %d" % (args, rc)) RuntimeError: Call to './configure --prefix="/home/sbusby/Downloads/cctbx/base"' failed with exit code 1 Process failed with return code 1

I don't need all the extra modules provided in CCTBX. Is there a way to just install/use the libtbx.easy_mp package?

I'm on a Debian OS (jessie).

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nwmoriarty commented 6 years ago

@sarahbuzz Have you solved your issue?