[PyMOL] Pymol installation problem

[Maike Bublitz]

Dear all,

I am stuck trying to install Open-source PyMol on a new Windows 10 (64-bit) 
laptop following the instructions from
http://www.pymolwiki.org/index.php/Windows_Install.


I have installed Python 2.7.15 to C:\Python27 (from python-2.7.15.amd64.msi) 
and assembled the following files in a C:\Pymol_installation folder:

pip-18.1-py2.py3-none-any.whl

numpy-1.14.6+mkl-cp27-cp27m-win-amd64.whl

Pmw-2.0.1-py2-none-any.whl

pymol_launcher-2.1-cp27-cp27m-win_amd64.whl

pymol-2.1.0-cp27-cp27m-win_amd64.whl

, all of them downloaded from Christoph Gohlke's webpage.


However, after typing in the command prompt

C:\Python27\python.exe pip-18.1-py2.py3-none-any.whl/pip install --no-index 
--find-links="%CD%" pymol_launcher

I get the following errors:

"Url ‘%CD%’ is ignored. It is either a non-existing path or lacks a specific 
scheme.
 Could not find  a version that satifisfies the requirement pymol-launcher 
(from versions: )

No matching distribution found for pymol launcher"

When I then try to do: dir “%CD%”\*.whl, I get:
“dir : Cannot find path ‘C: \Pymol_installation\%CD%’ because it dies not exist.
At line:1 char:1
+ dir “%CD%”\*.whl
+
   + CategoryInfo  : ObjectNotFound: 
(C:\Pymol_installation\%CD%:String) [Get-Childitem], ItemFoundException
   + FullyQualifiedErrorID : 
PathNotFound,Microsoft.Powershell.Commands.GetChildItemCommand


Have I chosen the wrong .whl files, or am I missing something else?

Thanks very much and kind regards,
Maike Bublitz

*
Dr. Maike Bublitz
Associate Professor of Microbial Biophysics
Department of Biochemistry
University of Oxford
South Parks Road
Oxford OX1 3QU
United Kingdom
phone: +44 (0)1865 613221
maike.bublitz(at)bioch.ox.ac.uk
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Re: [PyMOL] Installation problem

[Thomas Holder]

Hi Peter,

we haven't seen this problem before, can you give us some details about your 
setup? Is this on Windows 8?

Thanks,
  Thomas

On 29 Aug 2014, at 14:11, Peter Kahn k...@aesop.rutgers.edu wrote:

 Dear All:
 
 Help!
 Re-installing Pymol 1.7.0.5 after uninstalling failed with the following 
 error:
 Pymol 64 bit setup:Object already exists.
 When I pressed OK, the following message appeared:
 Setup wizard ended prematurely because of an error.  To install at a 
 later time run setup wizard again.
 I ran it again with the same result.
 
 Downloading version 1.7.2.1 had the same result.  Deleting the Pymol 
 subdirectory in Program Files didn't help. Neither did trying to install 
 the 32 bit version.
 
 Has anyone an idea that may solve the problem?
 
 Thanks,
 Peter
 
 -- 
 Peter C. Kahn, Ph.D.
 Professor of Biochemistry
 Department of Biochemistry  Microbiology
 Rutgers University
 76 Lipman Drive
 New Brunswick, NJ 08901
 
 NOTE NEW TELEPHONE NUMBER: 848-932-5618
 
 Telefax:732-932-8965
 Email:  k...@aesop.rutgers.edu

-- 
Thomas Holder
PyMOL Developer
Schrödinger, Inc.


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[PyMOL] Installation problem

[Peter Kahn]

Dear All:

Help!
Re-installing Pymol 1.7.0.5 after uninstalling failed with the following 
error:
Pymol 64 bit setup:Object already exists.
When I pressed OK, the following message appeared:
Setup wizard ended prematurely because of an error.  To install at a 
later time run setup wizard again.
I ran it again with the same result.

Downloading version 1.7.2.1 had the same result.  Deleting the Pymol 
subdirectory in Program Files didn't help. Neither did trying to install 
the 32 bit version.

Has anyone an idea that may solve the problem?

Thanks,
Peter

-- 
Peter C. Kahn, Ph.D.
Professor of Biochemistry
Department of Biochemistry  Microbiology
Rutgers University
76 Lipman Drive
New Brunswick, NJ 08901

NOTE NEW TELEPHONE NUMBER: 848-932-5618

Telefax:732-932-8965
Email:  k...@aesop.rutgers.edu


--
Slashdot TV.  
Video for Nerds.  Stuff that matters.
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[PyMOL] installation problem on XP laptop

[drigden]

Dear all

I just tried to install the latest version of Pymol on a XP laptop.  The
installation completes but when I try to launch the program I get

pymol.exe - Unable to Locate Component

This application has failed to start because MSVCR71.dll was not found.

It says that re-installing might help but it doesn't.  I can't google anything
about this.  Has anyone any ideas?

Thanks in advance

Daniel

Re: [PyMOL] installation problem on XP laptop

[Peter Adrian Meyer]

Daniel,

 I just tried to install the latest version of Pymol on a XP laptop.  The
 installation completes but when I try to launch the program I get

Are you trying the latest release version or one of the betas?  In any
event, it might be possible to install an older version (although this may
not work, if it fails in the same way it could help you to isolate the
problem).

 This application has failed to start because MSVCR71.dll was not found.

MSVCR71.dll appears to a a windows c++ runtime library (probably required
for some c stuff, as last time I checked there wasn't any c++ in pymol). 
Either the file isn't present (try searching for it), or the executable
can't find this (on unix, you'd fix this with LD_LIBRARY_PATH... for
windows, I believe this is done by registering the dll ; google or msdn
should have more information on this.  If I rememeber correctly, regsvr
MSVCR77.dll should work, but as always check things carefully before
messing around with the windows registry).

Hope this helps (at least until somebody with more experience with windows
than me can chime in).

Pete

Pete Meyer
Fu Lab
BMCB grad student
Cornell University

Re: [PyMOL] installation problem on XP laptop

[Daniel Rigden]

Dear Pete

Thanks for the help.  The one that didn't work was the standard 0.99,
not a beta version - pymol-0_99rc1-bin-win32.zip.  As you suggested, the
earlier 0.98 - pymol-0_98rc5-bin-win32.zip *does* work so I'm up and
running.  I guess others will know the ins and outs of the error.

Daniel 

On Tue, 2006-02-07 at 12:40 -0500, Peter Adrian Meyer wrote:
 Daniel,
 
  I just tried to install the latest version of Pymol on a XP laptop.  The
  installation completes but when I try to launch the program I get
 
 Are you trying the latest release version or one of the betas?  In any
 event, it might be possible to install an older version (although this may
 not work, if it fails in the same way it could help you to isolate the
 problem).
 
  This application has failed to start because MSVCR71.dll was not found.
 
 MSVCR71.dll appears to a a windows c++ runtime library (probably required
 for some c stuff, as last time I checked there wasn't any c++ in pymol). 
 Either the file isn't present (try searching for it), or the executable
 can't find this (on unix, you'd fix this with LD_LIBRARY_PATH... for
 windows, I believe this is done by registering the dll ; google or msdn
 should have more information on this.  If I rememeber correctly, regsvr
 MSVCR77.dll should work, but as always check things carefully before
 messing around with the windows registry).
 
 Hope this helps (at least until somebody with more experience with windows
 than me can chime in).
 
 Pete
 
 Pete Meyer
 Fu Lab
 BMCB grad student
 Cornell University
 
-- 
Dr Daniel John Rigden Tel:(+44) 151 795 4467
School of Biological Sciences FAX:(+44) 151 795 4406
Room 101, Biosciences Building
University of Liverpool
Crown St.,
Liverpool L69 7ZB, U.K.

[PyMOL] installation problem

[Shu-Hsien Sheu]

Hi,

Our system administrator of a linux cluster have trouble upgrading from 0.93
to 0.95:

[mfitz...@man local]$ sudo rpm -U --test pymol-0.95-1.rh73.py22.i386.rpm
[mfitz...@man local]$ sudo rpm -U pymol-0.95-1.rh73.py22.i386.rpm
warning: user warren does not exist - using root
warning: user warren does not exist - using root
warning: user warren does not exist - using root
warning: user warren does not exist - using root
warning: user warren does not exist - using root
warning: user warren does not exist - using root
warning: user warren does not exist - using root 
[mfitz...@man local]$ sudo rpm -V pymol-0.95-1 package pymol-0.95-1 is not
installed

Any ideas?

Thanks!
shuhsien

-Original Message-
From: pymol-users-ad...@lists.sourceforge.net
[mailto:pymol-users-ad...@lists.sourceforge.net] On Behalf Of Marc Saric
Sent: Thursday, April 15, 2004 8:15 AM
To: pymol-users@lists.sourceforge.net
Subject: [PyMOL] spectrum

Hi all,

I have a question regarding the spectrum command and b-factors. How are 
the color-ranges calculated by spectrum?

I.e. i would like to know the values for the different shades like in 
the color_b.py-script, which gives you not only a total range, but also 
the bins.

I would like to put a color-gradient-bar below a picture which shows 
numbers as well, and for that I need to know the ranges of blue, green, 
yellow, etc.

Or is it possible to do this from within Pymol automatically (like for 
iso-surfaces)?

Thanks in advance.

-- 
Bye,
Marc Saric


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Re: [PyMOL] installation problem

[Yu Chen]

The warning is ok, just ignore.
And to check the rpm package, use pymol as package name, not with
version numbers.

like 'rpm -q pymol'

Chen

On Thu, 15 Apr 2004, Shu-Hsien Sheu wrote:

 Hi,

 Our system administrator of a linux cluster have trouble upgrading from 0.93
 to 0.95:

 [mfitz...@man local]$ sudo rpm -U --test pymol-0.95-1.rh73.py22.i386.rpm
 [mfitz...@man local]$ sudo rpm -U pymol-0.95-1.rh73.py22.i386.rpm
 warning: user warren does not exist - using root
 warning: user warren does not exist - using root
 warning: user warren does not exist - using root
 warning: user warren does not exist - using root
 warning: user warren does not exist - using root
 warning: user warren does not exist - using root
 warning: user warren does not exist - using root
 [mfitz...@man local]$ sudo rpm -V pymol-0.95-1 package pymol-0.95-1 is not
 installed

 Any ideas?

 Thanks!
 shuhsien

 -Original Message-
 From: pymol-users-ad...@lists.sourceforge.net
 [mailto:pymol-users-ad...@lists.sourceforge.net] On Behalf Of Marc Saric
 Sent: Thursday, April 15, 2004 8:15 AM
 To: pymol-users@lists.sourceforge.net
 Subject: [PyMOL] spectrum

 Hi all,

 I have a question regarding the spectrum command and b-factors. How are
 the color-ranges calculated by spectrum?

 I.e. i would like to know the values for the different shades like in
 the color_b.py-script, which gives you not only a total range, but also
 the bins.

 I would like to put a color-gradient-bar below a picture which shows
 numbers as well, and for that I need to know the ranges of blue, green,
 yellow, etc.

 Or is it possible to do this from within Pymol automatically (like for
 iso-surfaces)?

 Thanks in advance.

 --
 Bye,
 Marc Saric


 ---
 This SF.Net email is sponsored by: IBM Linux Tutorials
 Free Linux tutorial presented by Daniel Robbins, President and CEO of
 GenToo technologies. Learn everything from fundamentals to system
 administration.http://ads.osdn.com/?ad_id=1470alloc_id=3638op=click
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 PyMOL-users@lists.sourceforge.net
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Re: [PyMOL] installation problem

[Michael Banck]

On Thu, Apr 15, 2004 at 10:27:32AM -0400, Shu-Hsien Sheu wrote:
 [mfitz...@man local]$ sudo rpm -V pymol-0.95-1 package pymol-0.95-1 is
 not installed

Just a shot in the dark, but are you sure the package is called
pymol-0.95-1 and not just pymol?


Michael