[cctbxbb] new cctbx-plus installers
luis.fuentes-montero at diamond.ac.uk
luis.fuentes-montero at diamond.ac.uk
Tue Sep 23 03:13:27 PDT 2014
Hi fellows,
One detail with the new installer that I will like to share:
I am giving it a try in a RHEL6 working station without root permission, so I modified the "/cctbx-installer-2014_09_21_2205/lib/libtbx/auto_build/install_distribution.py" file and changed one line:
destination = "/usr/local"
with the new path:
destination = "/scratch/cctbx-new"
The installation went pretty well until it got stuck trying MatplotLib, I don't think it got stuck because of the little hack I did, but still worth commenting and chowing the full console output.
Anybody can have a look?
Thanks,
Luiso.
./install --makedirs
==========================================================================
CCTBX Installation
version: 2014_09_21_2205
machine type: intel-linux-2.6-x86_64
OS version: 2.6.32-431.20.5.el6.x86_64
user shell: /bin/bash
destination: /scratch/cctbx-new
# of processors: 4
=========================================================================
No binary bundles found for intel-linux-2.6-x86_64
Okay, this must be the source-only installer.
CCTBX installation target directory <CCTBX_LOC> set to:
/scratch/cctbx-new/cctbx-2014_09_21_2205
CCTBX installation source directory set to:
/scratch/cctbx-installer-2014_09_21_2205
CCTBX installation build directory set to:
/scratch/cctbx-new/cctbx-2014_09_21_2205/build
CCTBX temporary build directory set to:
/scratch/cctbx-installer-2014_09_21_2205/install_tmp/intel-linux-2.6-x86_64/ws201
****************************************************************************
Automated CCTBX dependencies build script
report problems to cctbx-dev at cci.lbl.gov
****************************************************************************
Setting up directories...
*** Building dependencies first ***
--------------------------------------------------------------------------------
Installing Python...
log file is /scratch/cctbx-installer-2014_09_21_2205/install_tmp/intel-linux-2.6-x86_64/ws201/Python_install_log
getting package Python-2.7.6_cci.tar.gz...
using /scratch/cctbx-installer-2014_09_21_2205/dependencies/Python-2.7.6_cci.tar.gz
verifying Python installation... OK
--------------------------------------------------------------------------------
Installing numpy...
log file is /scratch/cctbx-installer-2014_09_21_2205/install_tmp/intel-linux-2.6-x86_64/ws201/numpy_install_log
getting package numpy-1.8.1.tar.gz...
using /scratch/cctbx-installer-2014_09_21_2205/dependencies/numpy-1.8.1.tar.gz
verifying numpy installation... OK
--------------------------------------------------------------------------------
Installing BioPython...
log file is /scratch/cctbx-installer-2014_09_21_2205/install_tmp/intel-linux-2.6-x86_64/ws201/BioPython_install_log
getting package biopython-1.64.tar.gz...
using /scratch/cctbx-installer-2014_09_21_2205/dependencies/biopython-1.64.tar.gz
verifying BioPython installation... OK
--------------------------------------------------------------------------------
Installing Freetype...
log file is /scratch/cctbx-installer-2014_09_21_2205/install_tmp/intel-linux-2.6-x86_64/ws201/Freetype_install_log
getting package freetype-2.4.2.tar.gz...
using /scratch/cctbx-installer-2014_09_21_2205/dependencies/freetype-2.4.2.tar.gz
--------------------------------------------------------------------------------
Installing Imaging...
log file is /scratch/cctbx-installer-2014_09_21_2205/install_tmp/intel-linux-2.6-x86_64/ws201/Imaging_install_log
getting package Imaging-1.1.7.tar.gz...
using /scratch/cctbx-installer-2014_09_21_2205/dependencies/Imaging-1.1.7.tar.gz
verifying Imaging installation... OK
--------------------------------------------------------------------------------
Installing reportlab...
log file is /scratch/cctbx-installer-2014_09_21_2205/install_tmp/intel-linux-2.6-x86_64/ws201/reportlab_install_log
getting package reportlab-2.6.tar.gz...
using /scratch/cctbx-installer-2014_09_21_2205/dependencies/reportlab-2.6.tar.gz
verifying reportlab installation... OK
--------------------------------------------------------------------------------
Installing HDF5...
log file is /scratch/cctbx-installer-2014_09_21_2205/install_tmp/intel-linux-2.6-x86_64/ws201/HDF5_install_log
getting package hdf5-1.8.8.tar.bz2...
using /scratch/cctbx-installer-2014_09_21_2205/dependencies/hdf5-1.8.8.tar.bz2
getting package h5py-2.0.1-edit.tar.gz...
using /scratch/cctbx-installer-2014_09_21_2205/dependencies/h5py-2.0.1-edit.tar.gz
verifying h5py installation... OK
--------------------------------------------------------------------------------
Installing libpng...
log file is /scratch/cctbx-installer-2014_09_21_2205/install_tmp/intel-linux-2.6-x86_64/ws201/libpng_install_log
getting package libpng-1.2.32.tar.gz...
using /scratch/cctbx-installer-2014_09_21_2205/dependencies/libpng-1.2.32.tar.gz
--------------------------------------------------------------------------------
Installing gettext...
log file is /scratch/cctbx-installer-2014_09_21_2205/install_tmp/intel-linux-2.6-x86_64/ws201/gettext_install_log
getting package gettext-0.18.2.tar.gz...
using /scratch/cctbx-installer-2014_09_21_2205/dependencies/gettext-0.18.2.tar.gz
--------------------------------------------------------------------------------
Installing glib...
log file is /scratch/cctbx-installer-2014_09_21_2205/install_tmp/intel-linux-2.6-x86_64/ws201/glib_install_log
getting package glib-2.12.11.tar.gz...
using /scratch/cctbx-installer-2014_09_21_2205/dependencies/glib-2.12.11.tar.gz
--------------------------------------------------------------------------------
Installing expat...
log file is /scratch/cctbx-installer-2014_09_21_2205/install_tmp/intel-linux-2.6-x86_64/ws201/expat_install_log
getting package expat-1.95.8.tar.gz...
using /scratch/cctbx-installer-2014_09_21_2205/dependencies/expat-1.95.8.tar.gz
--------------------------------------------------------------------------------
Installing fontconfig...
log file is /scratch/cctbx-installer-2014_09_21_2205/install_tmp/intel-linux-2.6-x86_64/ws201/fontconfig_install_log
getting package fontconfig-2.3.95.tar.gz...
using /scratch/cctbx-installer-2014_09_21_2205/dependencies/fontconfig-2.3.95.tar.gz
--------------------------------------------------------------------------------
Installing render...
log file is /scratch/cctbx-installer-2014_09_21_2205/install_tmp/intel-linux-2.6-x86_64/ws201/render_install_log
getting package render-0.8.tar.gz...
using /scratch/cctbx-installer-2014_09_21_2205/dependencies/render-0.8.tar.gz
--------------------------------------------------------------------------------
Installing Xrender...
log file is /scratch/cctbx-installer-2014_09_21_2205/install_tmp/intel-linux-2.6-x86_64/ws201/Xrender_install_log
getting package xrender-0.8.3.tar.gz...
using /scratch/cctbx-installer-2014_09_21_2205/dependencies/xrender-0.8.3.tar.gz
--------------------------------------------------------------------------------
Installing Xft...
log file is /scratch/cctbx-installer-2014_09_21_2205/install_tmp/intel-linux-2.6-x86_64/ws201/Xft_install_log
getting package xft-2.1.2.tar.gz...
using /scratch/cctbx-installer-2014_09_21_2205/dependencies/xft-2.1.2.tar.gz
--------------------------------------------------------------------------------
Installing pixman...
log file is /scratch/cctbx-installer-2014_09_21_2205/install_tmp/intel-linux-2.6-x86_64/ws201/pixman_install_log
getting package pixman-0.19.2.tar.gz...
using /scratch/cctbx-installer-2014_09_21_2205/dependencies/pixman-0.19.2.tar.gz
--------------------------------------------------------------------------------
Installing cairo...
log file is /scratch/cctbx-installer-2014_09_21_2205/install_tmp/intel-linux-2.6-x86_64/ws201/cairo_install_log
getting package cairo-1.8.10.tar.gz...
using /scratch/cctbx-installer-2014_09_21_2205/dependencies/cairo-1.8.10.tar.gz
--------------------------------------------------------------------------------
Installing pango...
log file is /scratch/cctbx-installer-2014_09_21_2205/install_tmp/intel-linux-2.6-x86_64/ws201/pango_install_log
getting package pango-1.16.1.tar.gz...
using /scratch/cctbx-installer-2014_09_21_2205/dependencies/pango-1.16.1.tar.gz
--------------------------------------------------------------------------------
Installing atk...
log file is /scratch/cctbx-installer-2014_09_21_2205/install_tmp/intel-linux-2.6-x86_64/ws201/atk_install_log
getting package atk-1.9.1.tar.gz...
using /scratch/cctbx-installer-2014_09_21_2205/dependencies/atk-1.9.1.tar.gz
--------------------------------------------------------------------------------
Installing tiff...
log file is /scratch/cctbx-installer-2014_09_21_2205/install_tmp/intel-linux-2.6-x86_64/ws201/tiff_install_log
getting package tiff-v3.6.1.tar.gz...
using /scratch/cctbx-installer-2014_09_21_2205/dependencies/tiff-v3.6.1.tar.gz
--------------------------------------------------------------------------------
Installing gtk+...
log file is /scratch/cctbx-installer-2014_09_21_2205/install_tmp/intel-linux-2.6-x86_64/ws201/gtk+_install_log
getting package gtk+-2.10.11.tar.gz...
using /scratch/cctbx-installer-2014_09_21_2205/dependencies/gtk+-2.10.11.tar.gz
--------------------------------------------------------------------------------
Installing gtk-engine...
log file is /scratch/cctbx-installer-2014_09_21_2205/install_tmp/intel-linux-2.6-x86_64/ws201/gtk-engine_install_log
getting package clearlooks-0.5.tar.gz...
using /scratch/cctbx-installer-2014_09_21_2205/dependencies/clearlooks-0.5.tar.gz
--------------------------------------------------------------------------------
Installing fonts...
log file is /scratch/cctbx-installer-2014_09_21_2205/install_tmp/intel-linux-2.6-x86_64/ws201/fonts_install_log
getting package fonts.tar.gz...
using /scratch/cctbx-installer-2014_09_21_2205/dependencies/fonts.tar.gz
--------------------------------------------------------------------------------
Installing wxPython...
log file is /scratch/cctbx-installer-2014_09_21_2205/install_tmp/intel-linux-2.6-x86_64/ws201/wxPython_install_log
getting package wxPython-src-2.8.12.1.tar.gz...
using /scratch/cctbx-installer-2014_09_21_2205/dependencies/wxPython-src-2.8.12.1.tar.gz
building wxWidgets with options:
--disable-mediactrl
--with-opengl
--prefix="/scratch/cctbx-new/cctbx-2014_09_21_2205/base"
--enable-optimize
--disable-debugreport
--with-gtk
--with-gtk-prefix="/scratch/cctbx-new/cctbx-2014_09_21_2205/base"
--with-gtk-exec-prefix="/scratch/cctbx-new/cctbx-2014_09_21_2205/base/lib"
--enable-graphics_ctx
building wxPython with options:
BUILD_GLCANVAS=1
BUILD_STC=0
BUILD_GIZMOS=0
BUILD_DLLWIDGET=0
BUILD_OGL=0
UNICODE=0
verifying wxPython installation... OK
--------------------------------------------------------------------------------
Installing PyRTF...
log file is /scratch/cctbx-installer-2014_09_21_2205/install_tmp/intel-linux-2.6-x86_64/ws201/PyRTF_install_log
getting package PyRTF-0.45.tar.gz...
using /scratch/cctbx-installer-2014_09_21_2205/dependencies/PyRTF-0.45.tar.gz
verifying PyRTF installation... OK
--------------------------------------------------------------------------------
Installing Matplotlib...
log file is /scratch/cctbx-installer-2014_09_21_2205/install_tmp/intel-linux-2.6-x86_64/ws201/Matplotlib_install_log
getting package matplotlib-1.3.1.tar.gz...
using /scratch/cctbx-installer-2014_09_21_2205/dependencies/matplotlib-1.3.1.tar.gz
Traceback (most recent call last):
File "./bin/install.py", line 34, in <module>
installer(sys.argv[1:])
File "/scratch/cctbx-installer-2014_09_21_2205/lib/libtbx/auto_build/install_distribution.py", line 127, in __init__
self.install_from_source()
File "/scratch/cctbx-installer-2014_09_21_2205/lib/libtbx/auto_build/install_distribution.py", line 380, in install_from_source
log=out)
File "/scratch/cctbx-installer-2014_09_21_2205/lib/libtbx/auto_build/install_base_packages.py", line 113, in __init__
self.build_cctbx_dependencies()
File "/scratch/cctbx-installer-2014_09_21_2205/lib/libtbx/auto_build/install_base_packages.py", line 170, in build_cctbx_dependencies
self.build_misc()
File "/scratch/cctbx-installer-2014_09_21_2205/lib/libtbx/auto_build/install_base_packages.py", line 646, in build_misc
confirm_import_module="matplotlib")
File "/scratch/cctbx-installer-2014_09_21_2205/lib/libtbx/auto_build/install_base_packages.py", line 337, in build_python_module_simple
log=pkg_log)
File "/scratch/cctbx-installer-2014_09_21_2205/lib/libtbx/auto_build/install_base_packages.py", line 192, in call
return call(args, log=log)
File "/scratch/cctbx-installer-2014_09_21_2205/lib/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 '/scratch/cctbx-new/cctbx-2014_09_21_2205/base/bin/python setup.py build ' failed with exit code 1
________________________________
From: Nathaniel Echols [nechols at lbl.gov]
Sent: 09 September 2014 19:46
To: cctbx mailing list
Subject: [cctbxbb] new cctbx-plus installers
Hi all--
We now have improved installers for CCTBX with all optional third-party dependencies, including numpy, wxPython, and matplotlib; these are basically just a simplified Phenix installer (minus anything that isn't open-source, obviously). For anyone doing visualization these are probably preferable to the default packages. More useful for doing active development is that since these include the pre-build Python, if you are working directly with the CCTBX sources you can bootstrap from these packages.
Yesterday's build is here:
http://cci.lbl.gov/cctbx_build/plus_bundles/2014_09_08_0005/
and in general the latest version can be obtained here:
http://cci.lbl.gov/cctbx_build/plus_bundles/current
although today's build isn't finished yet. The next build will also incorporate IPython. I still need to fix the download page so these are listed alongside the old bundles. Once this is done we'll probably declare an official "release".
-Nat
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