VMD-L Mailing List

From: Ropón-Palacios G. (groponp_at_gmail.com)
Date: Mon Sep 25 2023 - 14:52:05 CDT

Dear,

try export all paths, possible from APP vmd :

export PATH="/Applications//Applications/VMD 1.9.4a57-x86_64-Rev12.app/Contents:$PATH"
export PATH="/Applications//Applications/VMD 1.9.4a57-x86_64-Rev12.app/Contents/vmd:$PATH"

bet following get again following error:

Starting cionize...
pqrplugin) Warning no atom radii available, assigning radii of 1.0
Info) Opened coordinate file cionize-temp.pqr for writing.
Info) Finished with coordinate file cionize-temp.pqr.
couldn't find program `/Applications/VMD’

how can fix it?

best,

Geo.

> On Monday, Sep 25, 2023 at 3:49 AM, Castro Martinez Camila <camila.castro_at_tu-dortmund.de (mailto:camila.castro_at_tu-dortmund.de)> wrote:
>
> Did you add vmd into the path in your macOS?
>
>
>
>
>
>
> Camila
>
>
>
> De: owner-vmd-l_at_ks.uiuc.edu <owner-vmd-l_at_ks.uiuc.edu> en nombre de ROPÓN-PALACIOS G. G. <groponp_at_gmail.com>
> Enviado: domingo, 24 de septiembre de 2023 13:57:26
> Para: VMD Mailing List
> Asunto: vmd-l: <<cionize on macOS error>>
>
>
> Dear all, I’m using cionize on my MacOS con last version of VMD (with bug fixed to OS big surf on 2022) , then I use cionize :
>
> As document into the protocol of Juan R. Perilla, https://urldefense.com/v3/__https://link.springer.com/protocol/10.1007/978-1-4939-7756-7_13__;!!DZ3fjg!_9PVfFXDm9E2FmypkKt_rqHQCIbvOchlwchHfPHNhCkzPIWvjwKyNY2M8qHKEkVL3ZjmE-pd8sLAcoYx$ (https://urldefense.com/v3/__https://link.springer.com/protocol/10.1007/978-1-4939-7756-7_13__;!!DZ3fjg!_j39KWGxQzwPpvfsCFoxxiVS_IrO54Gt8mxBLAsi57oaQdQVuhemguHYHvQ1hIePyKnqPKBnWBTJoVUW$)
>
> But get the following error : Couldn’t find /Application/VMD
>
> It only into macOS because into Linux running normal,
>
> Help me please,
>
> Best,
>
> Geo
>
> Enviado de Outlook para iOS (https://urldefense.com/v3/__https://aka.ms/o0ukef__;!!DZ3fjg!_j39KWGxQzwPpvfsCFoxxiVS_IrO54Gt8mxBLAsi57oaQdQVuhemguHYHvQ1hIePyKnqPKBnWB74AGMQ$)
> Wichtiger Hinweis: Die Information in dieser E-Mail ist vertraulich. Sie ist ausschließlich für den Adressaten bestimmt. Sollten Sie nicht der für diese E-Mail bestimmte Adressat sein, unterrichten Sie bitte den Absender und vernichten Sie diese Mail. Vielen Dank.
> Unbeschadet der Korrespondenz per E-Mail, sind unsere Erklärungen ausschließlich final rechtsverbindlich, wenn sie in herkömmlicher Schriftform (mit eigenhändiger Unterschrift) oder durch Übermittlung eines solchen Schriftstücks per Telefax erfolgen.
>
> Important note: The information included in this e-mail is confidential. It is solely intended for the recipient. If you are not the intended recipient of this e-mail please contact the sender and delete this message. Thank you. Without prejudice of e-mail correspondence, our statements are only legally binding when they are made in the conventional written form (with personal signature) or when such documents are sent by fax.