Dear Abhisek, Version 1.10 is quite old and there have been several bug fixes and new features since then. We’re just about to release version 1.11 so the current nightly builds on the website should be quite stable. If you detect otherwise we would be interested to hear back. Regards, Robert From: abhisek Mondal Sent: Tuesday, November 1, 2016 5:07 PM To: [email protected] ; [email protected] Subject: RE: [phenixbb] phenix fails to configure on fedora 20 I'll try... But, my concern is, when I tried to install the same version in my workstation it worked cool. Is this some sort of issue with my laptop ? Nightly builds are beta right ? Won't it cause any stability issue ? On Nov 1, 2016 3:07 PM, wrote: Have you tried one of the recent nightly builds or the centos5 version? Rob Sent from my Windows 10 phone -- Robert Oeffner, Ph.D. Research Associate, The Read Group Department of Haematology, Cambridge Institute for Medical Research University of Cambridge Cambridge Biomedical Campus Wellcome Trust/MRC Building Hills Road Cambridge CB2 0XY www.cimr.cam.ac.uk/investigators/read/index.html tel: +44(0)1223 763234 mobile: +44(0)7712 887162 From: abhisek Mondal Sent: 01 November 2016 07:39 To: [email protected] Subject: [phenixbb] phenix fails to configure on fedora 20 Hi, I'm using Fedora 20 on a 4 core laptop. When I tried to install phenix it gave following error. Same version installed fine in my workstation but keep failing here. Please help me out here. Thanks. [root@viralhost phenix-installer-1.10.1-2155-intel-linux-2.6-x86_64-centos6]# ./install ========================================================================== Phenix Installation version: 1.10.1-2155 machine type: intel-linux-2.6 OS version: 3.19.8-100.fc20.i686 destination: /usr/local/phenix-1.10.1-2155 # of processors: 4 ========================================================================= Configuring Phenix components... Traceback (most recent call last): File "./bin/install.py", line 262, in <module> installer(sys.argv[1:]).install() File "/home/abhisek/phenix-installer-1.10.1-2155-intel-linux-2.6-x86_64-centos6/lib/libtbx/auto_build/install_distribution.py", line 185, in install self.install_from_binary() File "/home/abhisek/phenix-installer-1.10.1-2155-intel-linux-2.6-x86_64-centos6/lib/libtbx/auto_build/install_distribution.py", line 295, in install_from_binary self.reconfigure(log=log) File "/home/abhisek/phenix-installer-1.10.1-2155-intel-linux-2.6-x86_64-centos6/lib/libtbx/auto_build/install_distribution.py", line 460, in reconfigure call(args=args, log=log, verbose=self.options.verbose) File "/home/abhisek/phenix-installer-1.10.1-2155-intel-linux-2.6-x86_64-centos6/lib/libtbx/auto_build/installer_utils.py", line 81, in call raise RuntimeError("Call to '%s' failed with exit code %d" % (args, rc)) RuntimeError: Call to '/usr/local/phenix-1.10.1-2155/base/bin/python /usr/local/phenix-1.10.1-2155/modules/cctbx_project/libtbx/configure.py --current_working_directory /usr/local/phenix-1.10.1-2155/build --command_version_suffix 1.10.1-2155 phenix phaser solve_resolve labelit' failed with exit code 126 -- Abhisek Mondal Research Fellow Structural Biology and Bioinformatics Division CSIR-Indian Institute of Chemical Biology Kolkata 700032 INDIA

Hi Abhisek, Can you provide the output to /usr/local/phenix-1.11.1-2575/base/bin/python /usr/local/phenix-1.11.1-2575/modules/cctbx_project/libtbx/configure.py --current_working_directory /usr/local/phenix-1.11.1-2575/build --command_version_suffix 1.11.1-2575 phenix phaser solve_resolve labelit That's the command that is failing, and I'm assuming you did not delete the installation directory that was created from running the install command. -- 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 Thu, Nov 3, 2016 at 11:31 PM, abhisek Mondal wrote:

Hi,

The nightly build version is giving me the same error. I think something is going wrong during configuring the built.

Please have a look. Thank you.

On Tue, Nov 1, 2016 at 11:02 PM, Dr. Robert Oeffner wrote:

...

Dear Abhisek,

Version 1.10 is quite old and there have been several bug fixes and new features since then. We’re just about to release version 1.11 so the current nightly builds on the website should be quite stable. If you detect otherwise we would be interested to hear back.

Regards,

Robert

*From:* abhisek Mondal *Sent:* Tuesday, November 1, 2016 5:07 PM *To:* [email protected] ; [email protected] *Subject:* RE: [phenixbb] phenix fails to configure on fedora 20

I'll try... But, my concern is, when I tried to install the same version in my workstation it worked cool. Is this some sort of issue with my laptop ? Nightly builds are beta right ? Won't it cause any stability issue ?

On Nov 1, 2016 3:07 PM, wrote:

...

Have you tried one of the recent nightly builds or the centos5 version?

Rob

Sent from my Windows 10 phone -- Robert Oeffner, Ph.D. Research Associate, The Read Group Department of Haematology, Cambridge Institute for Medical Research University of Cambridge Cambridge Biomedical Campus Wellcome Trust/MRC Building Hills Road Cambridge CB2 0XY

www.cimr.cam.ac.uk/investigators/read/index.html tel: +44(0)1223 763234 mobile: +44(0)7712 887162

*From: *abhisek Mondal *Sent: *01 November 2016 07:39 *To: *[email protected] *Subject: *[phenixbb] phenix fails to configure on fedora 20

Hi,

I'm using Fedora 20 on a 4 core laptop. When I tried to install phenix it gave following error.

Same version installed fine in my workstation but keep failing here.

Please help me out here.

Thanks.

*[root@viralhost phenix-installer-1.10.1-2155-intel-linux-2.6-x86_64-centos6]# ./install *

* ==========================================================================*

* Phenix Installation*

* version: 1.10.1-2155*

* machine type: intel-linux-2.6*

* OS version: 3.19.8-100.fc20.i686*

* destination: /usr/local/phenix-1.10.1-2155*

* # of processors: 4*

* =========================================================================*

*Configuring Phenix components...*

*Traceback (most recent call last):*

* File "./bin/install.py", line 262, in <module>*

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

* File "/home/abhisek/phenix-installer-1.10.1-2155-intel-linux-2.6-x86_64-centos6/lib/libtbx/auto_build/install_distribution.py", line 185, in install*

* self.install_from_binary()*

* File "/home/abhisek/phenix-installer-1.10.1-2155-intel-linux-2.6-x86_64-centos6/lib/libtbx/auto_build/install_distribution.py", line 295, in install_from_binary*

* self.reconfigure(log=log)*

* File "/home/abhisek/phenix-installer-1.10.1-2155-intel-linux-2.6-x86_64-centos6/lib/libtbx/auto_build/install_distribution.py", line 460, in reconfigure*

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

* File "/home/abhisek/phenix-installer-1.10.1-2155-intel-linux-2.6-x86_64-centos6/lib/libtbx/auto_build/installer_utils.py", line 81, in call*

* raise RuntimeError("Call to '%s' failed with exit code %d" % (args, rc))*

*RuntimeError: Call to '/usr/local/phenix-1.10.1-2155/base/bin/python /usr/local/phenix-1.10.1-2155/modules/cctbx_project/libtbx/configure.py --current_working_directory /usr/local/phenix-1.10.1-2155/build --command_version_suffix 1.10.1-2155 phenix phaser solve_resolve labelit' failed with exit code 126*

--

Abhisek Mondal

*Research Fellow*

*Structural Biology and Bioinformatics Division*

*CSIR-Indian Institute of Chemical Biology*

*Kolkata 700032*

*INDIA*

-- Abhisek Mondal

*Research Fellow*

*Structural Biology and Bioinformatics Division* *CSIR-Indian Institute of Chemical Biology*

*Kolkata 700032*

*INDIA*

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