[phenixbb] phenix installation problem

Fri Dec 3 19:11:05 PST 2021

Hi Billy and Pavel,
The latest version is also not working with smilar error. 
In the "base_tmp" directory, I found "binary.log"(see the attachment). And it showed: /bin/sh: 1: /usr/local/phenix -1.20-4438/conda_base/bin/python: not found/.
I check the "conda_base" directory under "usr/local/phe...", I can see "python2.7" and "python2.7-config" files.
So, the problem is "python2.7" is not the required "python" ?

Best
Adam

在 2021-12-03 05:35:54，"Billy Poon" <BKPoon at lbl.gov> 写道：

Hi Adam,

In the installer directory, there should be a "base_tmp" directory with some log files. Can you send me those log files? They will show the actual error.

--
Billy K. Poon

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

On Thu, Dec 2, 2021 at 12:11 PM Pavel Afonine <pafonine at lbl.gov> wrote:

Hi,

try latest version:

https://phenix-online.org/download/nightly_builds.cgi

Pavel

On 11/30/21 18:10, princeadam at 163.com wrote:

Dear all

I tried to install Phenix on my virtual machine(Ubuntu) in win11. And got the following error message.

==========================================================================

                          Phenix Installation

                          version: 1.19.2-4158

                     machine type: intel-linux-2.6-x86_64

                       OS version: 5.11.0-40-generic

                      destination: /usr/local/phenix-1.19.2-4158

                  # of processors: 1

    =========================================================================

Configuring Phenix components...

Traceback (most recent call last):

  File "./bin/install.py", line 245, in <module>

    installer(sys.argv[1:]).install()

  File "/media/sf_Virtual_Shared_Folder/phenix-installer-1.19.2-4158-intel-linux-2.6-x86_64-centos6/lib/libtbx/auto_build/install_distribution.py", line 200, in install

    self.install_from_binary()

  File "/media/sf_Virtual_Shared_Folder/phenix-installer-1.19.2-4158-intel-linux-2.6-x86_64-centos6/lib/libtbx/auto_build/install_distribution.py", line 349, in install_from_binary

    self.reconfigure(log=log)

  File "/media/sf_Virtual_Shared_Folder/phenix-installer-1.19.2-4158-intel-linux-2.6-x86_64-centos6/lib/libtbx/auto_build/install_distribution.py", line 431, in reconfigure

    call(args=args, log=log, verbose=self.options.verbose)

  File "/media/sf_Virtual_Shared_Folder/phenix-installer-1.19.2-4158-intel-linux-2.6-x86_64-centos6/lib/libtbx/auto_build/installer_utils.py", line 55, in call

    raise RuntimeError("Call to &apos;%s&apos; failed with exit code %d" % (args, rc))

RuntimeError: Call to &apos;/usr/local/phenix-1.19.2-4158/conda_base/bin/python /usr/local/phenix-1.19.2-4158/modules/cctbx_project/libtbx/configure.py --current_working_directory /usr/local/phenix-1.19.2-4158/build --command_version_suffix 1.19.2-4158 phenix phaser solve_resolve labelit dials xia2 iota prime amber_adaptbx --use_conda&apos; failed with exit code 127

I searched phenixbb, and got the similar information from http://www.phenix-online.org/pipermail/phenixbb/2015-November/022456.html

It's a pity , that the answer was not suiable for me.

I have root access to write to usr/local. And under /usr/local/phenix-1.19.2-4158 , I can see four folders:build, conda_base, doc, modules.

Any one has suggestions?

all the best

Adam

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