VMD-L Mailing List

From: Maud Jusot (maud.jusot_at_iktos.com)
Date: Thu Feb 22 2024 - 04:32:55 CST

Hi Barry,

1) I'm on MacOS Ventura (v13.6.3) but my colleague was on a different
laptop on MacOS Sonoma (v14.2.1).
2) I don't remember making any update on my computer between the successful
version and the one with the bug. Same for my colleague. But maybe we
didn't pay attention to it. And I'm definitely sure I didn't change
anything regarding VMD. And both of us tried to reinstall VMD when we
realized it was not working anymore and it didn't solve the problem.

I attached the corrected startup.command file. Basically I just added a "/"
before the path to make it work.

Let me know if you need any other details.

Cheers,
Maud

On Wed, 21 Feb 2024 at 19:07, Isralewitz, Barry <isralewi_at_illinois.edu>
wrote:

> Hello Maud,
>
> Thanks for the bug report. I have two questions:
> 1) Which version of macOS are you running?
> 2) Did you make any changes / upgrades to this machine -- including to the
> VMD bundle directory -- between the most recent successful (unaltered) VMD
> launch and when you encountered this bug?
>
> Also, a bonus question: were your colleagues who also encountered this
> problem using the same machine as you? If not, I'd be interested in the
> answers to questions 1) and 2) for one or two of them.
>
> And, this request: could you send, as an email attachment , the version
> of startup.command that fixed the problem for you? I'm not following
> the differences and line breaks, versus the shipped version, in the edited
> version that you pasted in your email text.
>
> Cheers,
> Barry
>
>
> On Feb 21, 2024, at 9:24 AM, Maud Jusot <maud.jusot_at_iktos.com> wrote:
>
> Hello,
>
> It seems there is a bug when starting VMD (version 1.9.4 on MACOS ARM). It
> was working fine a few days ago but not anymore and was the same for a few
> colleagues. When running the application I got the following error:
>
> '''
> Applications/VMD\ 1.9.4a57-arm64-Rev12.app/Contents/MacOS/startup.command
> <https://urldefense.com/v3/__http://1.9.4a57-arm64-Rev12.app/Contents/MacOS/startup.command__;!!DZ3fjg!7eKV6NDHVKgBpFKmy1-rNBYefCsakbmti334M2iYaKfy_0ukhZcooTCnmpUVZsZti52RAuUssQ-VuTjDl8sG$>
> ; exit;
> zsh: no such file or directory: Applications/VMD
> 1.9.4a57-arm64-Rev12.app/Contents/MacOS/startup.command
> <https://urldefense.com/v3/__http://1.9.4a57-arm64-Rev12.app/Contents/MacOS/startup.command__;!!DZ3fjg!7eKV6NDHVKgBpFKmy1-rNBYefCsakbmti334M2iYaKfy_0ukhZcooTCnmpUVZsZti52RAuUssQ-VuTjDl8sG$>
>
>
> '''
>
> It seems the path is not recognized correctly anymore. To solve it, I
> simply edit the `startup.command` as follow:
> '''
> #!/bin/sh # startup.command # This is the script executed by VMDLauncher
> to actually start VMD. p=`dirname "$0"`
> /"$p/../Resources/VMD.app/Contents/MacOS/VMD" $* '''
>
> Hope this can help,
>
> Best,
> Maud
>
>
>
> --
> Barry Isralewitz
> Theoretical and Computational Biophysics Group
> 3143 Beckman, University of Illinois at Urbana-Champaign
> Work Phone: (217) 300-1988
> Email: isralewi_at_illinois.edu
> https://www.ks.uiuc.edu/~barryi
>
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