Feature request: changing default color for H-bonds
Hi, I think the subject of the message is explicit enough... Perhaps the option of having a default color different than cyan for hydrogen bonds already exists, but I have failed to find it. I have this line in my .chimera/preferences file: 'FindHBonds': {'line width': 2.0}, So I tried to include something like 'color: (0.0, 0.0, 0.0, 1.0)' (or bond color or H-bond color...) in the FindHBonds dictionary, alas without success. Let me give some rationale: I prefer having a white background, against which cyan is not really very visible when the structure gets complex. Not to me eyes at least. Thank you! Best regards, -- Miguel Architecture et Fonction des Macromolécules Biologiques (UMR7257) CNRS, Aix-Marseille Université Case 932, 163 Avenue de Luminy, 13288 Marseille cedex 9, France Tel: +33(0) 491 82 55 93 Fax: +33(0) 491 26 67 20 mailto:miguel.ortiz-lombardia@afmb.univ-mrs.fr http://w2.afmb.univ-mrs.fr/Miguel-Ortiz-Lombardia
Hi Miguel, This isn't exactly what you were asking, but thought I would mention that if you use the command, you can specify color (and linewidth and many other options) directly, for example: findhb color orange linewidth 4 <http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/findhbond.html> Best, Elaine ----- Elaine C. Meng, Ph.D. UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab Department of Pharmaceutical Chemistry University of California, San Francisco On Oct 21, 2012, at 6:35 AM, Miguel Ortiz Lombardía wrote:
Hi,
I think the subject of the message is explicit enough... Perhaps the option of having a default color different than cyan for hydrogen bonds already exists, but I have failed to find it. I have this line in my .chimera/preferences file:
'FindHBonds': {'line width': 2.0},
So I tried to include something like 'color: (0.0, 0.0, 0.0, 1.0)' (or bond color or H-bond color...) in the FindHBonds dictionary, alas without success.
Let me give some rationale: I prefer having a white background, against which cyan is not really very visible when the structure gets complex. Not to me eyes at least.
Thank you!
Best regards,
-- Miguel
Le 21/10/12 19:27, Elaine Meng a écrit :
Hi Miguel, This isn't exactly what you were asking, but thought I would mention that if you use the command, you can specify color (and linewidth and many other options) directly, for example:
findhb color orange linewidth 4
<http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/findhbond.html> Best, Elaine ----- Elaine C. Meng, Ph.D. UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab Department of Pharmaceutical Chemistry University of California, San Francisco
On Oct 21, 2012, at 6:35 AM, Miguel Ortiz Lombardía wrote:
Hi,
I think the subject of the message is explicit enough... Perhaps the option of having a default color different than cyan for hydrogen bonds already exists, but I have failed to find it. I have this line in my .chimera/preferences file:
'FindHBonds': {'line width': 2.0},
So I tried to include something like 'color: (0.0, 0.0, 0.0, 1.0)' (or bond color or H-bond color...) in the FindHBonds dictionary, alas without success.
Let me give some rationale: I prefer having a white background, against which cyan is not really very visible when the structure gets complex. Not to me eyes at least.
Thank you!
Best regards,
-- Miguel
Hi Elaine, Thank you very much. That may be good enough for me; I have created an alias with my favourite combo: alias ^myhb findhb twocolor true color black linewidth 2 For more sophisticated use I can always go and change the values in the dialogue window. Best regards, -- Miguel Architecture et Fonction des Macromolécules Biologiques (UMR7257) CNRS, Aix-Marseille Université Case 932, 163 Avenue de Luminy, 13288 Marseille cedex 9, France Tel: +33(0) 491 82 55 93 Fax: +33(0) 491 26 67 20 mailto:miguel.ortiz-lombardia@afmb.univ-mrs.fr http://w2.afmb.univ-mrs.fr/Miguel-Ortiz-Lombardia
participants (2)
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Elaine Meng -
Miguel Ortiz Lombardía