[chimerax-users] using pandas

[Tristan Croll]

I've had this problem before. The root cause turned out to be that "/path/to/ChimeraX/python3.8 -m pip install --user" installed to the Python​ user directory rather than the ChimeraX user directory. Try running:

"C:\Program Files\ChimeraX\bin\ChimeraX-console.exe" -m pip install --user pandas
________________________________
From: ChimeraX-users <chimerax-users-bounces at cgl.ucsf.edu> on behalf of Lagerwaard, I.M. (Ilse) via ChimeraX-users <chimerax-users at cgl.ucsf.edu>
Sent: 10 June 2021 09:27
To: ChimeraX Users Help <chimerax-users at cgl.ucsf.edu>
Subject: Re: [chimerax-users] using pandas


Hi Eric,



Thank you for the reply! Unfortunately, even though I followed your instructions and do have the bz2 module (I use Windows), I still get the same error. I can ‘import pandas’ in ChimeraX’s Python, but not from within the application itself. Do you have any idea what else might be going on?



Ilse



Van: Eric Pettersen <pett at cgl.ucsf.edu>
Verzonden: 09 June 2021 19:12
Aan: Lagerwaard, I.M. (Ilse) <i.m.lagerwaard at students.uu.nl>
CC: chimerax-users at cgl.ucsf.edu
Onderwerp: Re: [chimerax-users] using pandas



Hi Ilse,

                You can install pandas into ChimeraX's Python using 'pip install' as described in this mailing-list message: https://www.rbvi.ucsf.edu/pipermail/chimerax-users/2020-June/001216.html .  The caveat is that though this will work on all platforms, the actual later "Import pandas" will fail on at least some Linux platforms because some of our Linux installers don't include the bz2 module in their Python, which pandas depends on.  I will add you to the cc list for the ticket we have open for this problem, in case it matters to you.



--Eric



                Eric Pettersen

                UCSF Computer Graphics Lab





On Jun 9, 2021, at 3:09 AM, Lagerwaard, I.M. (Ilse) via ChimeraX-users <chimerax-users at cgl.ucsf.edu<mailto:chimerax-users at cgl.ucsf.edu>> wrote:



Hello everyone,



Is it possible to use the pandas package in ChimeraX? I tried opening a Python script containing the line ‘import pandas’, but I get the error: ‘ModuleNotFoundError: No module named 'pandas'’.



Kind regards,

Ilse

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