[phenixbb] Can't Run Rosetta_refine

[Nigel Moriarty]

Have you sourced the setpaths.[c]sh file. Are you able to run any phenix
programs?

Cheers

Nigel

---
Nigel W. Moriarty
Building 33R0349, Molecular Biophysics and Integrated Bioimaging
Lawrence Berkeley National Laboratory
Berkeley, CA 94720-8235
Phone : 510-486-5709     Email : NWMoriarty at LBL.gov
Fax   : 510-486-5909       Web  : CCI.LBL.gov

On Tue, Nov 29, 2016 at 12:47 PM, NISHANT SINGH <nishantksingh11 at gmail.com>
wrote:

> Hi Everyone,
>
> I am trying to run Phenix's rosetta refine. I seem to have downloaded and
> compiled the rosetta package fine, as I got the following statement after
> compiling was done:
>
> scons: done building targets.
>  but I am failing at running: rosetta.build_phenix_interface.
> It says that command not found. I am attaching my env page with this
> email.
>
> bmbs-imac:rosetta_bin_mac_2016.32.58837_bundle Kumar$ env
>
> ROSETTA3_DB=/Applications/rosetta_bin_mac_2016.32.58837_
> bundle/PHENIX_ROSETTA_PATH//main/database
>
> TERM_PROGRAM=Apple_Terminal
>
> SHELL=/bin/bash
>
> TERM=xterm-256color
>
> TMPDIR=/var/folders/cb/5v492std3d31jr42j7h3jm9h0000gp/T/
>
> Apple_PubSub_Socket_Render=/private/tmp/com.apple.launchd.
> KEC4L2Cjos/Render
>
> TERM_PROGRAM_VERSION=387
>
> OLDPWD=/Applications
>
> TERM_SESSION_ID=A82EA51D-0920-4F3B-BE03-92AE0C40A44B
>
> USER=Kumar
>
> SSH_AUTH_SOCK=/private/tmp/com.apple.launchd.tMihawGOC7/Listeners
>
> __CF_USER_TEXT_ENCODING=0x1F6:0x0:0x0
>
> ROSETTA_BIN=/Applications/rosetta_bin_mac_2016.32.58837_
> bundle/PHENIX_ROSETTA_PATH//main/source/bin
>
> PATH=/Library/Frameworks/Python.framework/Versions/3.5/
> bin:/Library/Frameworks/Python.framework/Versions/3.5/
> bin:/Users/Kumar/miniconda2/bin:/usr/local/bin:/usr/bin:/
> bin:/usr/sbin:/sbin:/opt/X11/bin
>
> PWD=/Applications/rosetta_bin_mac_2016.32.58837_bundle
>
> LANG=en_US.UTF-8
>
> XPC_FLAGS=0x0
>
> XPC_SERVICE_NAME=0
>
> SHLVL=1
>
> HOME=/Users/Kumar
>
> LOGNAME=Kumar
>
> DISPLAY=/private/tmp/com.apple.launchd.BhETYwyInl/org.macosforge.xquartz:0
>
> PHENIX_ROSETTA_PATH=/Applications/rosetta_bin_mac_
> 2016.32.58837_bundle/PHENIX_ROSETTA_PATH/
>
> _=/usr/bin/env
>
> bmbs-imac:rosetta_bin_mac_2016.32.58837_bundle Kumar$ env
>
> ROSETTA3_DB=/Applications/rosetta_bin_mac_2016.32.58837_
> bundle/PHENIX_ROSETTA_PATH//main/database
>
> TERM_PROGRAM=Apple_Terminal
>
> SHELL=/bin/bash
>
> TERM=xterm-256color
>
> TMPDIR=/var/folders/cb/5v492std3d31jr42j7h3jm9h0000gp/T/
>
> Apple_PubSub_Socket_Render=/private/tmp/com.apple.launchd.
> KEC4L2Cjos/Render
>
> TERM_PROGRAM_VERSION=387
>
> OLDPWD=/Applications
>
> TERM_SESSION_ID=A82EA51D-0920-4F3B-BE03-92AE0C40A44B
>
> USER=Kumar
>
> SSH_AUTH_SOCK=/private/tmp/com.apple.launchd.tMihawGOC7/Listeners
>
> __CF_USER_TEXT_ENCODING=0x1F6:0x0:0x0
>
> ROSETTA_BIN=/Applications/rosetta_bin_mac_2016.32.58837_
> bundle/PHENIX_ROSETTA_PATH//main/source/bin
>
> PATH=/Library/Frameworks/Python.framework/Versions/3.5/
> bin:/Library/Frameworks/Python.framework/Versions/3.5/
> bin:/Users/Kumar/miniconda2/bin:/usr/local/bin:/usr/bin:/
> bin:/usr/sbin:/sbin:/opt/X11/bin
>
> PWD=/Applications/rosetta_bin_mac_2016.32.58837_bundle
>
> LANG=en_US.UTF-8
>
> XPC_FLAGS=0x0
>
> XPC_SERVICE_NAME=0
>
> SHLVL=1
>
> HOME=/Users/Kumar
>
> LOGNAME=Kumar
>
> DISPLAY=/private/tmp/com.apple.launchd.BhETYwyInl/org.macosforge.xquartz:0
>
> PHENIX_ROSETTA_PATH=/Applications/rosetta_bin_mac_
> 2016.32.58837_bundle/PHENIX_ROSETTA_PATH/
>
> _=/usr/bin/env
>
> bmbs-imac:rosetta_bin_mac_2016.32.58837_bundle Kumar$
>
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