Re: [cctbxbb] Booststrap fails: zlib.h missing on Mojave with Xcode 10.3

Fails later. As can be seen below, the symlinks are bogus: python3 ends up being a link to ../../python3.7 and then of course, kaboom! Oh, my! Trying conda… Installing wxPython 4.0.3... Cross platform GUI toolkit for Python, "Phoenix" version log file is /Users/luc/Developer/cctbx/base_tmp/wxPython_install_log verifying wxPython installation in /Users/luc/Developer/cctbx/base/bin/python3 OK package wxpython took 7.5s to install Dependencies finished building. Regenerating symlinks with relative paths... creating symlink to ../../2to3-3.7 creating symlink to ../../python3.7 creating symlink to ../../python3.7m-config creating symlink to ../../libpng16-config creating symlink to ../../idle3.7 creating symlink to ../python3.7m-config creating symlink to ../../pyvenv-3.7 creating symlink to ../../pydoc3.7 ===== Running in build: run configure.py Traceback (most recent call last): File "bootstrap.py", line 2695, in <module> run() File "bootstrap.py", line 2690, in run use_conda=options.use_conda, File "bootstrap.py", line 1166, in run i.run() File "bootstrap.py", line 189, in run raise RuntimeError("Could not run %s: File not found" % executable) RuntimeError: Could not run base/bin/python3: File not found

On 13 Aug 2019, at 15:58, Luc Bourhis wrote:

I see a message should have been printed to advise me to do that but it was not. Buffering maybe? In any case, yes, it helps! Sorry, I missed that closed issue…

...

On 13 Aug 2019, at 15:40, [email protected] mailto:[email protected] wrote:

Hi Luc,

Does this help? https://github.com/cctbx/cctbx_project/issues/333 https://github.com/cctbx/cctbx_project/issues/333

I.e. have you also run:

sudo installer -pkg /Library/Developer/CommandLineTools/Packages/macOS_SDK_headers_for_macOS_10.14.pkg -target /

See also: https://github.com/cctbx/cctbx_project/issues/240 https://github.com/cctbx/cctbx_project/issues/240 and https://github.com/cctbx/cctbx_project/pull/334 https://github.com/cctbx/cctbx_project/pull/334

Cheers,

Richard

Dr Richard Gildea Data Analysis Scientist Tel: +441235 77 8078

Diamond Light Source Ltd. Diamond House Harwell Science & Innovation Campus Didcot Oxfordshire OX11 0DE ________________________________ From: [email protected] mailto:[email protected] mailto:[email protected]> on behalf of Luc Bourhis mailto:[email protected]> Sent: 13 August 2019 14:28:05 To: cctbx mailing list Subject: [cctbxbb] Booststrap fails: zlib.h missing on Mojave with Xcode 10.3

Hi,

I am trying to setup a Python 3 cctbx. I did

python bootstrap.py --git-ssh --python3 --builder cctbxlite

But it fails at the installation of OpenSSL. Clang version is "Apple LLVM version 10.0.1 (clang-1001.0.46.4)”. I attached the OpenSSL install log but I don’t see any error in it. And the advice to run xcode-select is bogus: I have it already setup. Best wishes,

Luc

Installing OpenSSL... log file is /Users/luc/Developer/cctbx/base_tmp/OpenSSL_install_log getting package openssl-1.0.2r.tar.gz... downloading from https://gitcdn.link/repo/dials/dependencies/master/openssl-1.0.2r.tar.gz https://gitcdn.link/repo/dials/dependencies/master/openssl-1.0.2r.tar.gz : 5223 kB installing openssl-1.0.2r.tar.gz... package openssl took 219.5s to install

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zlib.h missing -- try running 'xcode-select --install' first Process failed with return code 1

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