Hi Mark, I have a vague recollection that this problem is caused by a problematic preferences file — particularly a bad entry in the recently opened files list. You can test this by renaming your “preferences” file to something else and then starting Chimera. You can tell which folder that file is in by starting Chimera, opening Preferences (Favorites->Preferences) and changing the Category in the resulting dialog to “Preferences”. The location of the preferences file will then be displayed. On Windows the folder typically is C:\Documents and Settings\your_user_name\Application Data. I’m keeping my fingers crossed that this works… —Eric

On Feb 9, 2018, at 1:20 AM, Mark Warren wrote:

Hi,

Thanks for that. I have updated to the latest graphics version and no change. I then executed the commands and no change. I load up the 1yti example, the IDLE window shows #0, chain A: SIV proteinase and #0, chain I: peptide product so I know it loaded

I have installed Anaconda python, are there any known issues/gotchas with python installations?

Thanks for the help

Mark

From: Eric Pettersen [mailto:pett@cgl.ucsf.edu mailto:pett@cgl.ucsf.edu] Sent: 08 February 2018 21:37 To: Mark Warren mailto:mark.warren@md.catapult.org.uk> Cc: chimera-users@cgl.ucsf.edu mailto:chimera-users@cgl.ucsf.edu Subject: Re: [Chimera-users] Video issues

Hi Mark, Probably the first thing to check is that the driver for your graphics card is up to date. If the problem persists after installing the most recent driver for your card, then try this experiment: Open the IDLE Python shell (Tools->General Controls->IDLE) and type:

from chimera.tkgui import app app.rapidAccess.shown = False

Doe the rapid access interface go away when you do that?

—Eric

Eric Pettersen UCSF Computer Graphics Lab

On Feb 8, 2018, at 8:15 AM, Mark Warren mailto:mark.warren@md.catapult.org.uk> wrote:

Hi,

Running win10 and using Chimera 1.12. Upon startup I’m getting the splash logo, then the rapid access screen. All OK so far. However I load any protein and the dialog along the bottom status bar confirms its loaded but the screen still shows the rapid access screen. I can toggle the lightning button in the bottom right as much as I like but it remains on the rapid access screen. Any ideas what to check?

Thanks The Medicines Discovery Catapult is one of a network of elite technology and innovation centres established by Innovate UK as a long-term investment in the UK’s economic capability. Applying business-led research, Catapults help businesses transform great ideas into valuable products and services to compete in the global markets of tomorrow. Medicines Discovery Catapult is a company limited by guarantee, registered in England and Wales with company number 09928547. Our registered office is at Medicines Discovery Catapult, Mereside, Alderley Park, Alderley Edge, Cheshire, SK10 4TG. This email and any attachments may contain confidential information and is intended solely for the addressee. If you have received it in error, please send it back to us and immediately and permanently destroy all copies. Do not use, copy or disclose the information contained in this message or in any attachment. _______________________________________________ Chimera-users mailing list: Chimera-users@cgl.ucsf.edu mailto:Chimera-users@cgl.ucsf.edu Manage subscription: http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users

The Medicines Discovery Catapult is one of a network of elite technology and innovation centres established by Innovate UK as a long-term investment in the UK’s economic capability. Applying business-led research, Catapults help businesses transform great ideas into valuable products and services to compete in the global markets of tomorrow. Medicines Discovery Catapult is a company limited by guarantee, registered in England and Wales with company number 09928547. Our registered office is at Medicines Discovery Catapult, Mereside, Alderley Park, Alderley Edge, Cheshire, SK10 4TG. This email and any attachments may contain confidential information and is intended solely for the addressee. If you have received it in error, please send it back to us and immediately and permanently destroy all copies. Do not use, copy or disclose the information contained in this message or in any attachment.

Hi Mark, The Chimera Python should not be affected by other Python installations.  Chimera explicitly ignores the standard Python environment variables.  But we may have missed one.  Please send us a bug report using the Help / Report A Bug... menu entry.  That will tell us what kind of computer you have and which graphics driver.  Unfortunately, in this case, the environment variables are not part of the report.  To send the environment variables, run the cmd program, type "set" (without quotes and press the Return/Enter key afterwards), then right mouse click to Select All of the text, then in the Description part of the Chimera bug submission dialog, type Control-V to paste in the selected text. Then submit the bug.     -- Greg On 02/13/2018 01:17 AM, Mark Warren wrote:

Hi,

I tried that, generated a new preferences file, and no change I’m afraid.

The only thing that might be a factor I can think of is I changed the python install from std python(3.6) to anaconda (python 3.6).  All other python apps work fine.  Is this likely to be a cause, is there something I can check, a path, env variable setting, something like that?

Thanks for your help

*From:*Eric Pettersen [mailto:pett@cgl.ucsf.edu] *Sent:* 12 February 2018 23:40 *To:* Mark Warren *Cc:* chimera-users@cgl.ucsf.edu *Subject:* Re: [Chimera-users] Video issues

Hi Mark,

I have a vague recollection that this problem is caused by a problematic preferences file — particularly a bad entry in the recently opened files list.  You can test this by renaming your “preferences” file to something else and then starting Chimera.  You can tell which folder that file is in by starting Chimera, opening Preferences (Favorites->Preferences) and changing the Category in the resulting dialog to “Preferences”.  The location of the preferences file will then be displayed.  On Windows the folder typically is C:\Documents and Settings\/your_user_name/\Application Data.

I’m keeping my fingers crossed that this works…

—Eric

On Feb 9, 2018, at 1:20 AM, Mark Warren mailto:mark.warren@md.catapult.org.uk> wrote:

Hi,

Thanks for that.  I have updated to the latest graphics version and no change.  I then executed the commands and no change.  I load up the 1yti example, the IDLE window shows #0, chain A: SIV proteinase and #0, chain I: peptide product so I know it loaded

I have installed Anaconda python, are there any known issues/gotchas with python installations?

Thanks for the help

Mark

*From:*Eric Pettersen [mailto:pett@cgl.ucsf.edu] *Sent:*08 February 2018 21:37 *To:*Mark Warren mailto:mark.warren@md.catapult.org.uk> *Cc:*chimera-users@cgl.ucsf.edu mailto:chimera-users@cgl.ucsf.edu *Subject:*Re: [Chimera-users] Video issues

Hi Mark,

Probably the first thing to check is that the driver for your graphics card is up to date.  If the problem persists after installing the most recent driver for your card, then try this experiment:  Open the IDLE Python shell (Tools->General Controls->IDLE) and type:

from chimera.tkgui import app

app.rapidAccess.shown = False

Doe the rapid access interface go away when you do that?

—Eric

Eric Pettersen

UCSF Computer Graphics Lab

On Feb 8, 2018, at 8:15 AM, Mark Warren mailto:mark.warren@md.catapult.org.uk> wrote:

Hi,

Running win10 and using Chimera 1.12.  Upon startup I’m getting the splash logo, then the rapid access screen.  All OK so far.  However I load any protein and the dialog along the bottom status bar confirms its loaded but the screen still shows the rapid access screen.  I can toggle the lightning button in the bottom right as much as I like but it remains on the rapid access screen. Any ideas what to check?

Thanks

The Medicines Discovery Catapult is one of a network of elite technology and innovation centres established by Innovate UK as a long-term investment in the UK’s economic capability. Applying business-led research, Catapults help businesses transform great ideas into valuable products and services to compete in the global markets of tomorrow. Medicines Discovery Catapult is a company limited by guarantee, registered in England and Wales with company number 09928547. Our registered office is at Medicines Discovery Catapult, Mereside, Alderley Park, Alderley Edge, Cheshire, SK10 4TG. This email and any attachments may contain confidential information and is intended solely for the addressee. If you have received it in error, please send it back to us and immediately and permanently destroy all copies. Do not use, copy or disclose the information contained in this message or in any attachment. _______________________________________________ Chimera-users mailing list:Chimera-users@cgl.ucsf.edu mailto:Chimera-users@cgl.ucsf.edu Manage subscription:http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users

The Medicines Discovery Catapult is one of a network of elite technology and innovation centres established by Innovate UK as a long-term investment in the UK’s economic capability. Applying business-led research, Catapults help businesses transform great ideas into valuable products and services to compete in the global markets of tomorrow. Medicines Discovery Catapult is a company limited by guarantee, registered in England and Wales with company number 09928547. Our registered office is at Medicines Discovery Catapult, Mereside, Alderley Park, Alderley Edge, Cheshire, SK10 4TG. This email and any attachments may contain confidential information and is intended solely for the addressee. If you have received it in error, please send it back to us and immediately and permanently destroy all copies. Do not use, copy or disclose the information contained in this message or in any attachment.

The Medicines Discovery Catapult is one of a network of elite technology and innovation centres established by Innovate UK as a long-term investment in the UK’s economic capability. Applying business-led research, Catapults help businesses transform great ideas into valuable products and services to compete in the global markets of tomorrow. Medicines Discovery Catapult is a company limited by guarantee, registered in England and Wales with company number 09928547. Our registered office is at Medicines Discovery Catapult, Mereside, Alderley Park, Alderley Edge, Cheshire, SK10 4TG. This email and any attachments may contain confidential information and is intended solely for the addressee. If you have received it in error, please send it back to us and immediately and permanently destroy all copies. Do not use, copy or disclose the information contained in this message or in any attachment.

_______________________________________________ Chimera-users mailing list: Chimera-users@cgl.ucsf.edu Manage subscription: http://plato.cgl.ucsf.edu/mailman/listinfo/chimera-users