subject:"Re\: \[PyMOL\] green rings"

Re: [PyMOL] green rings

2015-03-18 Thread Thomas Holder

Incentive PyMOL 1.7.4.4 fixes this problem.

Cheers,
  Thomas

On 13 Mar 2015, at 23:55, Thomas Holder  wrote:

> The latest update to SVN fixes the ring color problem.
> 
> Cheers,
>  Thomas
> 
> H. Adam Steinberg wrote, On 03/10/15 10:39:
>> Thank you!
>> 
>>> On Mar 10, 2015, at 9:07 AM, Thomas Holder  
>>> wrote:
>>> 
>>> Hi Quentin, Adam, David, Francis,
>>> 
>>> I just looked at the code, color is hardcoded if "ring_color" is default. 
>>> We'll fix that.
>>> 
>>> Francis, I assume you used an rather old PyMOL version, I confirm that I 
>>> get the expected color with PyMOL 1.2.
>>> 
>>> Cheers,
>>> Thomas
>>> 
>>> On 10 Mar 2015, at 09:56, Quentin Vicens  wrote:
>>> 
 Thanks Francis - I tried just that and it's green with version 1.7.2.1!!
 Quentin
 
 On 10 Mar 2015, at 14:51, Francis Reyes  wrote:
 
> Strange,
> 
> I load 2GIS.pdb
> 
> show cartoon
> hide lines
> set cartoon_ring_mode, 3
> spectrum count, blue_white_red
> 
> and I get 
> 
> 
> No green in the rings? 
> 
> PyMOL 1.4.
> 
> 
> F
> On Mar 9, 2015, at 11:20 AM, Quentin Vicens  wrote:
> 
>> Hi folks,
>> 
>> I'm wondering how to get rid of the default green shine that's present 
>> in the middle of every ring (see attached snapshot) following commands 
>> such as:
>> spectrum count,blue_white_red
>> set cartoon_ladder_mode,4
>> set cartoon_ring_mode,3
>> set cartoon_ring_finder,2
>> 
>> Thanks in advance for any help!
>> Quentin
>> 
>> Quentin Vicens
>> Tél : +33 (0)3 88 41 70 42
>> Tél 2 : +33 (0)7 61 37 83 10
>> Fax : +33 (0)3 88 60 22 18
>> qvic...@unistra.fr
>> 
>> UPR9002-CNRS-University of Strasbourg
>> Institut de Biologie Moléculaire et Cellulaire
>> 15 rue René Descartes
>> F - 67084 Strasbourg 
>> http://www-ibmc.u-strasbg.fr/arn/Eriani/equi_Eriani_fr.php
>> 
>> 
>> 

-- 
Thomas Holder
PyMOL Principal Developer
Schrödinger, Inc.


--
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Re: [PyMOL] green rings

2015-03-13 Thread Thomas Holder

The latest update to SVN fixes the ring color problem.

Cheers,
  Thomas

H. Adam Steinberg wrote, On 03/10/15 10:39:
> Thank you!
> 
>> On Mar 10, 2015, at 9:07 AM, Thomas Holder  
>> wrote:
>>
>> Hi Quentin, Adam, David, Francis,
>>
>> I just looked at the code, color is hardcoded if "ring_color" is default. 
>> We'll fix that.
>>
>> Francis, I assume you used an rather old PyMOL version, I confirm that I get 
>> the expected color with PyMOL 1.2.
>>
>> Cheers,
>>  Thomas
>>
>> On 10 Mar 2015, at 09:56, Quentin Vicens  wrote:
>>
>>> Thanks Francis - I tried just that and it's green with version 1.7.2.1!!
>>> Quentin
>>>
>>> On 10 Mar 2015, at 14:51, Francis Reyes  wrote:
>>>
 Strange,

 I load 2GIS.pdb

 show cartoon
 hide lines
 set cartoon_ring_mode, 3
 spectrum count, blue_white_red

 and I get 
 

 No green in the rings? 

 PyMOL 1.4.


 F
 On Mar 9, 2015, at 11:20 AM, Quentin Vicens  wrote:

> Hi folks,
>
> I'm wondering how to get rid of the default green shine that's present in 
> the middle of every ring (see attached snapshot) following commands such 
> as:
> spectrum count,blue_white_red
> set cartoon_ladder_mode,4
> set cartoon_ring_mode,3
> set cartoon_ring_finder,2
>
> Thanks in advance for any help!
> Quentin
>
> Quentin Vicens
> Tél : +33 (0)3 88 41 70 42
> Tél 2 : +33 (0)7 61 37 83 10
> Fax : +33 (0)3 88 60 22 18
> qvic...@unistra.fr
>
> UPR9002-CNRS-University of Strasbourg
> Institut de Biologie Moléculaire et Cellulaire
> 15 rue René Descartes
> F - 67084 Strasbourg 
> http://www-ibmc.u-strasbg.fr/arn/Eriani/equi_Eriani_fr.php
>
>
> 

-- 
Thomas Holder
PyMOL Principal Developer
Schrödinger, Inc.

--
Dive into the World of Parallel Programming The Go Parallel Website, sponsored
by Intel and developed in partnership with Slashdot Media, is your hub for all
things parallel software development, from weekly thought leadership blogs to
news, videos, case studies, tutorials and more. Take a look and join the 
conversation now. http://goparallel.sourceforge.net/
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Re: [PyMOL] green rings

2015-03-10 Thread H. Adam Steinberg

Thank you!

> On Mar 10, 2015, at 9:07 AM, Thomas Holder  
> wrote:
> 
> Hi Quentin, Adam, David, Francis,
> 
> I just looked at the code, color is hardcoded if "ring_color" is default. 
> We'll fix that.
> 
> Francis, I assume you used an rather old PyMOL version, I confirm that I get 
> the expected color with PyMOL 1.2.
> 
> Cheers,
>  Thomas
> 
> On 10 Mar 2015, at 09:56, Quentin Vicens  wrote:
> 
>> Thanks Francis - I tried just that and it's green with version 1.7.2.1!!
>> Quentin
>> 
>> On 10 Mar 2015, at 14:51, Francis Reyes  wrote:
>> 
>>> Strange,
>>> 
>>> I load 2GIS.pdb
>>> 
>>> show cartoon
>>> hide lines
>>> set cartoon_ring_mode, 3
>>> spectrum count, blue_white_red
>>> 
>>> and I get 
>>> 
>>> 
>>> No green in the rings? 
>>> 
>>> PyMOL 1.4.
>>> 
>>> 
>>> F
>>> On Mar 9, 2015, at 11:20 AM, Quentin Vicens  wrote:
>>> 
 Hi folks,
 
 I'm wondering how to get rid of the default green shine that's present in 
 the middle of every ring (see attached snapshot) following commands such 
 as:
 spectrum count,blue_white_red
 set cartoon_ladder_mode,4
 set cartoon_ring_mode,3
 set cartoon_ring_finder,2
 
 Thanks in advance for any help!
 Quentin
 
 Quentin Vicens
 Tél : +33 (0)3 88 41 70 42
 Tél 2 : +33 (0)7 61 37 83 10
 Fax : +33 (0)3 88 60 22 18
 qvic...@unistra.fr
 
 UPR9002-CNRS-University of Strasbourg
 Institut de Biologie Moléculaire et Cellulaire
 15 rue René Descartes
 F - 67084 Strasbourg 
 http://www-ibmc.u-strasbg.fr/arn/Eriani/equi_Eriani_fr.php
 
 
 
> 
> 
> -- 
> Thomas Holder
> PyMOL Principal Developer
> Schrödinger, Inc.
> 
> 
> --
> Dive into the World of Parallel Programming The Go Parallel Website, sponsored
> by Intel and developed in partnership with Slashdot Media, is your hub for all
> things parallel software development, from weekly thought leadership blogs to
> news, videos, case studies, tutorials and more. Take a look and join the 
> conversation now. http://goparallel.sourceforge.net/
> ___
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> Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users
> Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net

H. Adam Steinberg
7904 Bowman Rd
Lodi, WI 53555
608/592-2366


--
Dive into the World of Parallel Programming The Go Parallel Website, sponsored
by Intel and developed in partnership with Slashdot Media, is your hub for all
things parallel software development, from weekly thought leadership blogs to
news, videos, case studies, tutorials and more. Take a look and join the 
conversation now. http://goparallel.sourceforge.net/
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Re: [PyMOL] green rings

2015-03-10 Thread Thomas Holder

Hi Quentin, Adam, David, Francis,

I just looked at the code, color is hardcoded if "ring_color" is default. We'll 
fix that.

Francis, I assume you used an rather old PyMOL version, I confirm that I get 
the expected color with PyMOL 1.2.

Cheers,
  Thomas

On 10 Mar 2015, at 09:56, Quentin Vicens  wrote:

> Thanks Francis - I tried just that and it's green with version 1.7.2.1!!
> Quentin
> 
> On 10 Mar 2015, at 14:51, Francis Reyes  wrote:
> 
>> Strange,
>> 
>> I load 2GIS.pdb
>> 
>> show cartoon
>> hide lines
>> set cartoon_ring_mode, 3
>> spectrum count, blue_white_red
>> 
>> and I get 
>> 
>> 
>> No green in the rings? 
>> 
>> PyMOL 1.4.
>> 
>> 
>> F
>> On Mar 9, 2015, at 11:20 AM, Quentin Vicens  wrote:
>> 
>>> Hi folks,
>>> 
>>> I'm wondering how to get rid of the default green shine that's present in 
>>> the middle of every ring (see attached snapshot) following commands such as:
>>> spectrum count,blue_white_red
>>> set cartoon_ladder_mode,4
>>> set cartoon_ring_mode,3
>>> set cartoon_ring_finder,2
>>> 
>>> Thanks in advance for any help!
>>> Quentin
>>> 
>>> Quentin Vicens
>>> Tél : +33 (0)3 88 41 70 42
>>> Tél 2 : +33 (0)7 61 37 83 10
>>> Fax : +33 (0)3 88 60 22 18
>>> qvic...@unistra.fr
>>> 
>>> UPR9002-CNRS-University of Strasbourg
>>> Institut de Biologie Moléculaire et Cellulaire
>>> 15 rue René Descartes
>>> F - 67084 Strasbourg 
>>> http://www-ibmc.u-strasbg.fr/arn/Eriani/equi_Eriani_fr.php
>>> 
>>> 
>>> 


-- 
Thomas Holder
PyMOL Principal Developer
Schrödinger, Inc.


--
Dive into the World of Parallel Programming The Go Parallel Website, sponsored
by Intel and developed in partnership with Slashdot Media, is your hub for all
things parallel software development, from weekly thought leadership blogs to
news, videos, case studies, tutorials and more. Take a look and join the 
conversation now. http://goparallel.sourceforge.net/
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Re: [PyMOL] green rings

2015-03-10 Thread Quentin Vicens

Thanks Francis - I tried just that and it's green with version 1.7.2.1!!
Quentin



On 10 Mar 2015, at 14:51, Francis Reyes  wrote:

> Strange,
> 
> I load 2GIS.pdb
> 
> show cartoon
> hide lines
> set cartoon_ring_mode, 3
> spectrum count, blue_white_red
> 
> and I get 
> 
> 
> No green in the rings? 
> 
> PyMOL 1.4.
> 
> 
> F
> On Mar 9, 2015, at 11:20 AM, Quentin Vicens  wrote:
> 
>> Hi folks,
>> 
>> I'm wondering how to get rid of the default green shine that's present in 
>> the middle of every ring (see attached snapshot) following commands such as:
>> spectrum count,blue_white_red
>> set cartoon_ladder_mode,4
>> set cartoon_ring_mode,3
>> set cartoon_ring_finder,2
>> 
>> Thanks in advance for any help!
>> Quentin
>> 
>> Quentin Vicens
>> Tél : +33 (0)3 88 41 70 42
>> Tél 2 : +33 (0)7 61 37 83 10
>> Fax : +33 (0)3 88 60 22 18
>> qvic...@unistra.fr
>> 
>> UPR9002-CNRS-University of Strasbourg
>> Institut de Biologie Moléculaire et Cellulaire
>> 15 rue René Descartes
>> F - 67084 Strasbourg 
>> http://www-ibmc.u-strasbg.fr/arn/Eriani/equi_Eriani_fr.php
>> 
>> 
>> 
>> --
>> Dive into the World of Parallel Programming The Go Parallel Website, 
>> sponsored
>> by Intel and developed in partnership with Slashdot Media, is your hub for 
>> all
>> things parallel software development, from weekly thought leadership blogs to
>> news, videos, case studies, tutorials and more. Take a look and join the 
>> conversation now. 
>> http://goparallel.sourceforge.net/___
>> PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net)
>> Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users
>> Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
> 

--
Dive into the World of Parallel Programming The Go Parallel Website, sponsored
by Intel and developed in partnership with Slashdot Media, is your hub for all
things parallel software development, from weekly thought leadership blogs to
news, videos, case studies, tutorials and more. Take a look and join the 
conversation now. http://goparallel.sourceforge.net/___
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Re: [PyMOL] green rings

2015-03-10 Thread H. Adam Steinberg

I continually have this same issue.

When we change the color of an object, the fill color of the ring should also 
change to that same color. It is very annoying to have it stay default green.

If you change the color of the ring fill to something other than green, then 
close the pse file, and open it at a later date, all of the ring fills colors 
default back to green!

Is there anyway to change the code so the ring fill color changes with the user 
selection, and then not have it revert back to green when we open the file at a 
later date?


> On Mar 9, 2015, at 10:20 AM, Quentin Vicens  wrote:
> 
> Hi folks,
> 
> I'm wondering how to get rid of the default green shine that's present in the 
> middle of every ring (see attached snapshot) following commands such as:
> spectrum count,blue_white_red
> set cartoon_ladder_mode,4
> set cartoon_ring_mode,3
> set cartoon_ring_finder,2
> 
> Thanks in advance for any help!
> Quentin
> 
> Quentin Vicens
> Tél : +33 (0)3 88 41 70 42
> Tél 2 : +33 (0)7 61 37 83 10
> Fax : +33 (0)3 88 60 22 18
> qvic...@unistra.fr 
>  
> UPR9002-CNRS-University of Strasbourg
> Institut de Biologie Moléculaire et Cellulaire
> 15 rue René Descartes
> F - 67084 Strasbourg 
> http://www-ibmc.u-strasbg.fr/arn/Eriani/equi_Eriani_fr.php 
> 
> 
> 
> --
> Dive into the World of Parallel Programming The Go Parallel Website, sponsored
> by Intel and developed in partnership with Slashdot Media, is your hub for all
> things parallel software development, from weekly thought leadership blogs to
> news, videos, case studies, tutorials and more. Take a look and join the 
> conversation now. 
> http://goparallel.sourceforge.net/___
> PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net)
> Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users
> Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net

H. Adam Steinberg
7904 Bowman Rd
Lodi, WI 53555
608/592-2366

--
Dive into the World of Parallel Programming The Go Parallel Website, sponsored
by Intel and developed in partnership with Slashdot Media, is your hub for all
things parallel software development, from weekly thought leadership blogs to
news, videos, case studies, tutorials and more. Take a look and join the 
conversation now. http://goparallel.sourceforge.net/___
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Re: [PyMOL] green rings

2015-03-10 Thread David Hall

you can set cartoon_ring_color ?




> On Mar 9, 2015, at 11:20 AM, Quentin Vicens  wrote:
> 
> Hi folks,
> 
> I'm wondering how to get rid of the default green shine that's present in the 
> middle of every ring (see attached snapshot) following commands such as:
> spectrum count,blue_white_red
> set cartoon_ladder_mode,4
> set cartoon_ring_mode,3
> set cartoon_ring_finder,2
> 
> Thanks in advance for any help!
> Quentin
> 
> Quentin Vicens
> Tél : +33 (0)3 88 41 70 42
> Tél 2 : +33 (0)7 61 37 83 10
> Fax : +33 (0)3 88 60 22 18
> qvic...@unistra.fr 
>  
> UPR9002-CNRS-University of Strasbourg
> Institut de Biologie Moléculaire et Cellulaire
> 15 rue René Descartes
> F - 67084 Strasbourg 
> http://www-ibmc.u-strasbg.fr/arn/Eriani/equi_Eriani_fr.php 
> 
> 
> 
> --
> Dive into the World of Parallel Programming The Go Parallel Website, sponsored
> by Intel and developed in partnership with Slashdot Media, is your hub for all
> things parallel software development, from weekly thought leadership blogs to
> news, videos, case studies, tutorials and more. Take a look and join the 
> conversation now. 
> http://goparallel.sourceforge.net/___
> PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net)
> Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users
> Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net

--
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by Intel and developed in partnership with Slashdot Media, is your hub for all
things parallel software development, from weekly thought leadership blogs to
news, videos, case studies, tutorials and more. Take a look and join the 
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Re: [PyMOL] green rings

Re: [PyMOL] green rings

Re: [PyMOL] green rings

Re: [PyMOL] green rings

Re: [PyMOL] green rings

Re: [PyMOL] green rings

Re: [PyMOL] green rings

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