Hi Himal,
I'm confused by a couple of things. First, your system packages
should list all of ChimeraX's packages, like the screenshot
attached to this email. Did you build ChimeraX (make
build-from-scratch) and subsequently use ChimeraX's internal
Python, not your system Python, to make your virtual environment?
Second, the path to your interpreter looks like it's a path to a
virtual environment inside ChimeraX itself.
In the base directory of the git repository:
./ChimeraX.app/bin/python.exe -m venv .venv
--system-site-packages
Then in PyCharm -> Settings -> Project: ChimeraX ->
Python Interpreter
Add a new interpreter
path/to/ChimeraX/.venv/Scripts/python.exe
Use that as the interpreter for your run or debug configuration.
-- Zach
On 2/27/2024 1:36 PM, Eric Pettersen
wrote:
Nudge, nudge... :-)
Begin forwarded message:
Subject: Re: [chimerax-users] Seeking
Assistance with PyCharm Debugging Configuration
Date: February 20, 2024 at 11:34:54 PM PST
Hi Eric,
Thank you for the reply and I appreciate
your assistance.
I've been using the internal Python to
create a virtual environment in my project’s folder,
and I've set the Python interpreter path as outlined
in the documentation. The first attached screenshot
is my interpreter configuration.
However, my current challenge lies in the
debugging section. I've created a new Run/Debug
Configuration(third attachment) following the
instructions , as shown in the second attached
screenshot. Regrettably, when attempting to run the
configuration, I encountered an error in the
console: "No module named chimerax.core" (refer to
the fourth attached screenshot).
I believe that the issue is regarding a
module named chimerax.core which I couldn’t find on
the project.
Thank you in advance for your help.
Himal
Hi
Himal,
The person on our team that uses PyCharm and
that wrote that documentation is on a trip to NIH this
week and may not be able to respond promptly. Reading
that page myself, it seems that the Debugging section
assumes that you set up a virtual environment as
outlined in the preceding "IDEs" section. Did you do
that?
--Eric
Eric Pettersen
UCSF Computer Graphics Lab
> On Feb 19, 2024, at 9:40 PM, himalgodage2759--- via
ChimeraX-users <chimerax-users@cgl.ucsf.edu>
wrote:
>
> Dear ChimeraX Dev Team,
>
> I'm Himal Godage, and I am currently in the process
of developing a bundle for ChimeraX software. I have
been thoroughly following the provided documentation,
successfully completing the steps related to setting up
a ChimeraX development environment, obtaining the code,
and compiling ChimeraX. However, I have encountered a
challenge in the IDEs, Debugging, and Profiling section,
specifically within PyCharm. Following the provided
steps, I am instructed to:
> 1. Create a new Run/Debug Configuration.
> 2. Set the script path field to point at a module.
> 3. Set the module to “chimerax.core”.
> 4. Set the Python interpreter to ChimeraX’s
internal Python.
> 5. Uncheck “Add content roots to PYTHONPATH”.
> 6. Uncheck “Add source roots to PYTHONPATH”.
> While attempting to follow these instructions, I
encountered difficulty in locating the "chimerax.core"
module. Unfortunately, the provided directory structure
or module seems to be difficult to find in my current
project. However there is a module named core in the
following path. ChimeraX > src > bundles >
core
>
> I am reaching out to seek your guidance on
resolving this issue. Could you please provide insights
on how I can locate or create the necessary
"chimerax.core" module or suggest an alternative
approach to address this problem?
>
> Thank you in advance for your time and support.
> Best regards,
>
> Himal Godage
> himalgodage2759@gmail.com
> _______________________________________________
> ChimeraX-users mailing list -- chimerax-users@cgl.ucsf.edu
> To unsubscribe send an email to chimerax-users-leave@cgl.ucsf.edu
> Archives: https://mail.cgl.ucsf.edu/mailman/archives/list/chimerax-users@cgl.ucsf.edu/
>
