Re: [PyMOL] keyboard shorcuts

2025-09-10 Thread Jarrett Johnson
científicas: > http://www.jcoll.org/coll-pdfs/ > > > ___ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol

Re: [PyMOL] Pymol license not found on cluster

2025-06-30 Thread Jarrett Johnson
t; watermark? > > Best > Nikhil Nambiar > > > > > > ___ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/l

Re: [PyMOL] Pymol loading pdb files twice

2025-06-20 Thread Jarrett Johnson
Hello, Sorry, I'm a little late to reply here, but we released 3.1.6.1 early last week which should hopefully address the issue where files were doubly loaded. Jarrett J. On Thu, May 29, 2025 at 7:45 PM Jarrett Johnson < jarrett.john...@schrodinger.com> wrote: > Hi Kevin, > &g

Re: [PyMOL] Two issues with the draw command with current pymol version 3.1.5.1

2025-06-20 Thread Jarrett Johnson
u want smoother edges). Hope that helps, Jarrett J. On Thu, May 29, 2025 at 9:00 PM Jarrett Johnson < jarrett.john...@schrodinger.com> wrote: > Hi Norbert, > > Thanks very much for the repro steps. I could reproduce this and I believe > I know where the issue lies (since I caus

Re: [PyMOL] Two issues with the draw command with current pymol version 3.1.5.1

2025-05-29 Thread Jarrett Johnson
antialias_shader, 1" cause no problem. > > Best regards, > > Norbert > > > > ___ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourcef

Re: [PyMOL] Pymol loading pdb files twice

2025-05-29 Thread Jarrett Johnson
e. I do not see this behavior in version 3.0.0. > > > > -- > > Kevin Jude, PhD > > Structural Biology Research Specialist, Garcia Lab > > Howard Hughes Medical Institute > > Stanford University School of Medicine > > Beckman B177, 279 Campus Drive

Re: [PyMOL] Plugins with newer PyMOL versions

2025-05-29 Thread Jarrett Johnson
tp://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe > -- *Jarrett Johnson* | Staff Developer, PyMOL ___ PyMOL-users mailing list Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net Unsubscribe: https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe

Re: [PyMOL] about image generation limitation of the EDU license

2025-05-29 Thread Jarrett Johnson
#x27;) > cmd.set('stick_radius', 0.15) > cmd.set('sphere_scale', 0.3) > cmd.color('gray', 'elem C') > cmd.color('red', 'elem O') > cmd.color('blue', 'elem N') >

Re: [PyMOL] 'Extent' representation in PyMOL

2025-04-12 Thread Jarrett Johnson
> https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe > -- *Jarrett Johnson* | Staff Developer, PyMOL ___ PyMOL-users mailing list Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net Unsubscribe: https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe

Re: [PyMOL] 3.1.3.1 no viewport sizing with the movie timeline panel toggled on?

2025-04-02 Thread Jarrett Johnson
t, Northwest Labs room 311.13 > > Cambridge, MA 02138 > Voice: (617) 495-5616e-mail: gau...@mcb.harvard.edu > > https://projects.iq.harvard.edu/gaudetlab/home > > ___ > > > ___ > PyMOL-users mailing list > A

Re: [PyMOL] Caver3 plugin failure to initialise

2025-02-27 Thread Jarrett Johnson
wrote: > Hi, > > > Unfortunately, I'm still getting the same error ("no module named > tkinter") and a failure to initialise. Any ideas? > > > Cheers, > > > Irwin > -- > *From:* Jarrett Johnson > *Sent:* 17 F

Re: [PyMOL] Caver3 plugin failure to initialise

2025-02-16 Thread Jarrett Johnson
_ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe > -- *Jarrett Johnson* | Staff Developer, PyMOL ___

Re: [PyMOL] Question Regarding Timeline Python API Availability in Open-Source PyMOL

2025-01-20 Thread Jarrett Johnson
e. Are there any plans for it > to be open source one day? > > Best regards, > Martin > On 20.01.2025 19:44, Jarrett Johnson wrote: > > Hi Martin, > > Timeline and its corresponding Python API is only available for on > Incentive versions. > > Jarrett J.

Re: [PyMOL] Question Regarding Timeline Python API Availability in Open-Source PyMOL

2025-01-20 Thread Jarrett Johnson
nce. > > Best regards, > Martin > ___ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe -- *Jarre

Re: [PyMOL] About license question

2024-12-05 Thread Jarrett Johnson
ps://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe -- *Jarrett Johnson* | Senior Developer, PyMOL ___ PyMOL-users mailing list Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net Unsubscribe: https://sourceforge.n

Re: [PyMOL] Create command with ranges of states

2024-07-24 Thread Jarrett Johnson
__ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe -- *Jarrett Johnson* | Senior Developer, PyMOL __

Re: [PyMOL] Pymol 3 Timeline issues

2024-07-20 Thread Jarrett Johnson
>> ___ >> PyMOL-users mailing list >> Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net >> Unsubscribe: >> https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe > > ___ > PyMOL-users mailing lis

Re: [PyMOL] Pymol 3 Timeline issues

2024-07-19 Thread Jarrett Johnson
gt; Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe -- *Jarrett Johnson* | Senior Developer, PyMOL ___ PyMOL-users mailing list Archives: http

Re: [PyMOL] BCIF

2024-07-17 Thread Jarrett Johnson
_ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe -- *Jarrett Johnson* | Senior Developer, PyMOL ___

Re: [PyMOL] `set grid_mode, 1` not working on a pml script?

2024-05-20 Thread Jarrett Johnson
hing. > > > El lun, 20 may 2024 a la(s) 12:36 p.m., Jarrett Johnson ( > jarrett.john...@schrodinger.com) escribió: > >> Hi Francisco, >> >> Which version of PyMOL are you using? >> >> Jarrett J. >> >> On Mon, May 20, 2024 at 2:30 PM Franc

Re: [PyMOL] `set grid_mode, 1` not working on a pml script?

2024-05-20 Thread Jarrett Johnson
_ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe -- *Jarrett Johnson* | Senior Developer, PyMOL __

Re: [PyMOL] Exporting movie as PNG frames produces only single frame

2024-05-02 Thread Jarrett Johnson
> PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe -- *Jarrett Johnson* | Senior Developer, PyMOL

[PyMOL] Announcing PyMOL 3.0 Release

2024-04-11 Thread Jarrett Johnson
Cheers, - The PyMOL Team at Schrödinger -- *Jarrett Johnson* | Senior Developer, PyMOL ___ PyMOL-users mailing list Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net Unsubscribe: https://sourceforge.net/projects/pymol/lists/pymol

Re: [PyMOL] labels on nucleic acids

2024-04-03 Thread Jarrett Johnson
__ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe > -- *Jarrett Johnson* | Senior Developer, PyMOL __

Re: [PyMOL] create new object from selection - version 3.0

2024-04-01 Thread Jarrett Johnson
6Sp2TTu?domain=mackaymatthewslab.org> > > > ___ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe >

Re: [PyMOL] Pymol Getting rid of the Colorbar

2023-11-29 Thread Jarrett Johnson
nd it worked. Many thanks! > Best regards, > > Anna > On 29.11.2023 04:47, Jarrett Johnson wrote: > > Hi Anna, > > Toggling an object's activity by clicking on the GUI uses the underlying > *disable > *command. If you already know the name of the color ramp, you

Re: [PyMOL] Pymol Getting rid of the Colorbar

2023-11-28 Thread Jarrett Johnson
__ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe -- *Jarrett Johnson* | Senior Developer, PyMOL _

Re: [PyMOL] Vacuum Electrostatics error

2023-11-28 Thread Jarrett Johnson
-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe > -- *Jarrett Johnson* | Senior Developer, PyMOL ___ PyMOL-users mailing list Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net Unsubscribe: https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe

Re: [PyMOL] Map to cartoon

2023-07-24 Thread Jarrett Johnson
rrett J On Mon, Jul 24, 2023 at 1:27 PM Foster, Mark wrote: > Thanks Jarrett for the response. > > > > I think `spectrum` should work, but I can’t figure out how to access the > proximity parameter calculated by `ramp_new` in order to use it directly > (e.g., “p.prox”), or t

Re: [PyMOL] Map to cartoon

2023-07-24 Thread Jarrett Johnson
resiliency of these tribal nations and > recognize the historical context that has and continues to affect the > Indigenous peoples of this land. > > > ___ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-u

Re: [PyMOL] Question on residue selection in multiple PDB

2023-07-20 Thread Jarrett Johnson
Sorry, typo. For the second approach, state should be `i + 1` and not `-1`" Jarrett J. On Thu, Jul 20, 2023 at 8:49 AM Jarrett Johnson < jarrett.john...@schrodinger.com> wrote: > Hi Neena, > > Is the split_states necessary? You can query the distance between atoms on >

Re: [PyMOL] Question on residue selection in multiple PDB

2023-07-20 Thread Jarrett Johnson
> structures and find polar contacts within this selection? >> >> Many thanks, >> Neena >> > ___________ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe:

Re: [PyMOL] Distance measure between pseudo atoms does not update over states

2023-07-19 Thread Jarrett Johnson
list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe -- *Jarrett Johnson* | Senior Developer, PyMOL ''' See more here: http://www.pymolwiki.org/index.php/cen

Re: [PyMOL] Help with selecting interface residues between two structures

2023-06-29 Thread Jarrett Johnson
ponding residues in object “pred”? > > > > In addition, what if in the pred structure, chains are named A, B, and C, > corresponding to base structure L, H, A, respectively, how will I handle > that? > > (I was planning to rename the chains, if there is no nice trick to > t

Re: [PyMOL] Edu-PyMOL for master thesis

2023-06-20 Thread Jarrett Johnson
gt; Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe -- *Jarrett Johnson* | Senior Developer, PyMOL ___ PyMOL-users mailing list Archives: http://www.mai

Re: [PyMOL] reset TTT matrix to identity

2023-06-02 Thread Jarrett Johnson
ng the matrix values with the object kept in its new > position. > Regards, > Philip > > On Fri, Jun 2, 2023 at 12:56 PM Jarrett Johnson < > jarrett.john...@schrodinger.com> wrote: > >> Hi Philip, >> >> Have you tried the `matrix_reset` command instead?

Re: [PyMOL] reset TTT matrix to identity

2023-06-02 Thread Jarrett Johnson
an provide. > Regards, > Philip > ___ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe

Re: [PyMOL] Generating of Rg for every state in PyMOL

2023-05-18 Thread Jarrett Johnson
; Jessica Lim > ___ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe > -- *Jarrett Johnson* | S

Re: [PyMOL] Surface and cartoon transparency together?

2023-05-18 Thread Jarrett Johnson
sts/pymol-users/unsubscribe -- *Jarrett Johnson* | Senior Developer, PyMOL ___ PyMOL-users mailing list Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net Unsubscribe: https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe

Re: [PyMOL] PLEASE HELP

2023-03-27 Thread Jarrett Johnson
d really appreciate it. I'm > really stuck and in need of help. > > Thanks so much in advance, > > Kyle > > > ___ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net &g

Re: [PyMOL] Loading gromacs and amber trajectory

2022-11-18 Thread Jarrett Johnson
cts/pymol/lists/pymol-users/unsubscribe -- *Jarrett Johnson* | Senior Developer, PyMOL ___ PyMOL-users mailing list Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net Unsubscribe: https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe

Re: [PyMOL] Solid stick between two residues?

2022-09-05 Thread Jarrett Johnson
rs@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe > -- *Jarrett Johnson* | Senior Developer, PyMOL ___ PyMOL-users mailing list Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net Unsubscribe: https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe

Re: [PyMOL] pymol for educational purpose

2022-07-22 Thread Jarrett Johnson
_ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe -- *Jarrett Johnson* | Senior Developer, PyMOL ___

Re: [PyMOL] invalid namespace

2022-07-18 Thread Jarrett Johnson
Can anyone help? Thanks. > > -- > Criss Hartzell > ___ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/py

[PyMOL] PyMOL Announcements (Fellowship & Future of PyMOL)

2022-07-15 Thread Jarrett Johnson
PyMOL. Stay tuned for more details on our website about PyMOL 3.0 and our future roadmap later this year. Best, PyMOL Development Team -- *Jarrett Johnson* | Senior Developer, PyMOL ___ PyMOL-users mailing list Archives: http://www.mail-archive.com/pymol

Re: [PyMOL] Question about glm in pymol

2022-07-13 Thread Jarrett Johnson
Hi, Your version of glm (default with Centos7 with yum) should now work. I committed a change to fix this compiler error about twelve hours ago. You just need to pull the latest changes. Best, Jarrett J. On Tue, Jul 12, 2022 at 10:24 PM 张敏华 wrote: > Dear Jarrett Johnson: > In

Re: [PyMOL] Question about glm in pymol

2022-07-13 Thread Jarrett Johnson
ling list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe -- *Jarrett Johnson* | Senior Developer, PyMOL ___ PyMOL-users mailing list A

Re: [PyMOL] Did not recieve Email

2022-06-23 Thread Jarrett Johnson
w.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe -- *Jarrett Johnson* | Senior Developer, PyMOL ___ PyMOL-users mailing list Archives: http://www.mail-archive

Re: [PyMOL] "PyMOL-users" mailing list

2022-06-21 Thread Jarrett Johnson
ve questions about PyMOL. > > Kind regards, > ___ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubsc

Re: [PyMOL] EduPymol Not sending Liscene

2022-06-21 Thread Jarrett Johnson
e: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe -- *Jarrett Johnson* | Senior Developer, PyMOL ___ PyMOL-users mailing list Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net Unsubscribe: http

Re: [PyMOL] pymol education license

2022-06-17 Thread Jarrett Johnson
_ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe -- *Jarrett Johnson* | Senior Developer, PyMOL _

Re: [PyMOL] pair_fit crashes Pymol 2.5.2 (incentive, OSX) ?

2022-02-16 Thread Jarrett Johnson
Hi James, This is a known issue. Try disabling undo before using the command. Best, Jarrett Johnson On Mon, Feb 14, 2022 at 10:37 AM James Procter (Staff) < j.proc...@dundee.ac.uk> wrote: > Dear pymol-users > > Could anyone confirm that the following test of the pair_fit com

Re: [PyMOL] PyMOL for M1 macs

2021-12-05 Thread Jarrett Johnson
on via Conda install? > See here: https://pymol.org/2/support.html? > Supported platform states M1 with rosetta2. Perhaps with some penalty for > efficiency though. Anyone tried? > > Sent from my iPhone > > On Dec 5, 2021, at 10:27 PM, Jarrett Johnson < > jarrett.john...@s

Re: [PyMOL] PyMOL for M1 macs

2021-12-05 Thread Jarrett Johnson
uild of PyMOL for M1 Macs yet? > > Cheers, > > Chris > > > ___ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pym

Re: [PyMOL] About contacting the PYMOL-creators

2021-11-04 Thread Jarrett Johnson
Regards, > K. Zeghida. > > ___ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe -- *Jarrett Johnson* | Senior Developer [image: Schr

Re: [PyMOL] help - password cracked

2021-10-29 Thread Jarrett Johnson
dvice as to how to solve this. > > Many thanks in advance! > > Best, > > Joli > ___ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projec

Re: [PyMOL] Labeling residues for publication

2021-10-28 Thread Jarrett Johnson
> https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe -- *Jarrett Johnson* | Senior Developer [image: Schrodinger Logo] <https://www.schrodinger.com/> ___ PyMOL-users mailing list Archives: http://www.mail-archive.com/pymol-users@

Re: [PyMOL] Labeling residues for publication

2021-10-28 Thread Jarrett Johnson
> > On 28.10.2021, at 14:40, Jarrett Johnson > wrote: > > Hi George, > > This issue should've been addressed in PyMOL 2.5.1. I would consider > upgrading if you can. > > Best, > Jarrett J > > On Thu, Oct 28, 2021 at 9:31 AM George Tzotzos via PyMOL-user

Re: [PyMOL] AxPyMOL

2021-09-27 Thread Jarrett Johnson
problem? > > > > Thank you all very much. > > > > Michael > > > > > > > ___ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe:

Re: [PyMOL] pymol installation error

2021-09-12 Thread Jarrett Johnson
ubstitution failed: > > layer1/Scene.cpp:2557:42: note: mismatched types ‘const T*’ and > ‘glm::tvec3’ > > I->m_view.translate(glm::make_vec3(v1)); /* offset view to compensate */ > ^ > error: command 'g++' failed with exit sta

Re: [PyMOL] Custom zoom settings

2021-07-27 Thread Jarrett Johnson
tp://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe -- *Jarrett Johnson* | Senior Developer [image: Schrodinger Logo] <https://www.schrodinger.com/> ___

Re: [PyMOL] small GUI font size

2021-07-22 Thread Jarrett Johnson
___ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe -- *Jarrett Johnson* | Senior Developer [image: Schrodinger Logo] &

[PyMOL] PyMOL 2.5.1 Released

2021-07-01 Thread Jarrett Johnson
classroom and connect you with educators from all over the world. https://www.schrodinger.com/conferences-meetings/2021-schrodinger-educators-day-online As always, we welcome any feedback and bug reports. Cheers, - The PyMOL Team at Schrödinger -- *Jarrett Johnson* | Senior Developer [image

Re: [PyMOL] PyMOL 2.5 released

2021-05-10 Thread Jarrett Johnson
m/schrodinger/pymol-open-source.git? > > On 05/10/2021 12:27 PM, Jarrett Johnson wrote: > > Greetings, > > We are happy to announce the release of PyMOL 2.5. Download ready-to-use > bundles from https://pymol.org/ or update your installation with "conda > install

[PyMOL] PyMOL 2.5 released

2021-05-10 Thread Jarrett Johnson
converter tools including 2to3 may be useful if you need to update python scripts. Find the complete release notes at: https://pymol.org/d/media:new25 We welcome any feedback and bug reports. Cheers, - The PyMOL Team at Schrödinger -- *Jarrett Johnson* | Senior Developer [image: Schrodinger Lo

Re: [PyMOL] Cartoon_transparency

2021-05-08 Thread Jarrett Johnson
> https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe -- *Jarrett Johnson* | Senior Developer [image: Schrodinger Logo] <https://www.schrodinger.com/> ___ PyMOL-users mailing list Archives: http://www.mail-archive.com/pymol-users@l

Re: [PyMOL] Pymol in conda-forge osx-arm64 for new M1 Macs

2021-05-06 Thread Jarrett Johnson
subscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe -- *Jarrett Johnson* | Senior Developer [image: Schrodinger Logo] <https://www.schrodinger.com/> ___ PyMOL-users mailing list Archives: http://www.mail-archive.com/py

Re: [PyMOL] Custom selection operators

2021-04-30 Thread Jarrett Johnson
et > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe > -- *Jarrett Johnson* | Senior Developer [image: Schrodinger Logo] <https://www.schrodinger.com/> ___ PyMOL-users mailing list Archives: http://w

Re: [PyMOL] renumber

2020-06-15 Thread Jarrett Johnson
scribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe -- *Jarrett Johnson* | Senior Developer [image: Schrodinger Logo] <https://www.schrodinger.com/> ___ PyMOL-users mailing list Archives: http://www.mail-archive.com/pymol-users

Re: [PyMOL] Extract all phi and psi angles

2020-04-27 Thread Jarrett Johnson
thanks, > Neena > ___ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe -- *Jarrett Johnson* | Senior D

Re: [PyMOL] Can't install latest version on Mac

2020-02-13 Thread Jarrett Johnson
ory > Wellcome Trust Genome Campus > Hinxton > Cambridge CB10 1SD > United Kingdom > > ___ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforg

Re: [PyMOL] Open source v2.3.3

2020-02-12 Thread Jarrett Johnson
Campus > Hinxton > Cambridge CB10 1SD > United Kingdom > > ___ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscr

Re: [PyMOL] Ray tracing transparent sticks

2020-01-30 Thread Jarrett Johnson
much. > > All the best, > Yannis > > ___ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsu

Re: [PyMOL] Problem with PDB file export

2020-01-21 Thread Jarrett Johnson
Shein-Lumbroso* > *m:* +61 406 276 801 | *e: *ofir.sh...@gmail.com > ___ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/un

Re: [PyMOL] Space group Symmetry operators

2019-05-01 Thread Jarrett Johnson
Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe -- Jarrett Johnson PyMOL Developer Schrödinger, Inc. ___ PyMOL-users mailing list Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net Unsubsc

Re: [PyMOL] Open source PyMOL 2.4

2019-03-13 Thread Jarrett Johnson
researcher in Yokohama, Japan > > > ___ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe >

Re: [PyMOL] PyMOL 2.3 released

2019-02-13 Thread Jarrett Johnson
TBbrFjOSxSGtf80f5GLwY4UoeoqXOgi2y1Y&s=WVkM4La4mZsWQ2beQpPA_hXCmu_AFvn6RbGtetuCDqA&e= > > > ___ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://

Re: [PyMOL] Artificial Lines for Sticks

2018-12-17 Thread Jarrett Johnson
ves: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > Unsubscribe: > https://sourceforge.net/projects/pymol/lists/pymol-users/unsubscribe -- Jarrett Johnson PyMOL Developer Schrödinger, Inc. ___ PyMOL-users mailing list

Re: [PyMOL] distance

2018-10-25 Thread Jarrett Johnson
nux_Install > > > Cheers, > > Joseph. > > > > Joseph S. Brock | PhD > Researcher > Drew Lab > Department of Biochemistry and Biophysics > Stockholm University > -- > *From:* Jarrett Johnson > *Sent:* Thursday, 25 October 2018 11:34:

Re: [PyMOL] distance

2018-10-25 Thread Jarrett Johnson
t; > Joseph S. Brock | PhD > Researcher > Drew Lab > Department of Biochemistry and Biophysics > Stockholm University > ___ > PyMOL-users mailing list > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > U

Re: [PyMOL] Mojave support

2018-09-28 Thread Jarrett Johnson
pplication. On Fri, Sep 28, 2018 at 2:14 PM Jack Vizelter wrote: > Is Mojave then officially supported with PyMol? > > > > > > > > *From: *Jarrett Johnson > *Date: *Friday, September 28, 2018 at 12:59 PM > *To: *"sa...@umich.edu" > *Cc: *Pymol User

Re: [PyMOL] Mojave support

2018-09-28 Thread Jarrett Johnson
> Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > -- Jarrett Johnson PyMOL Developer Schrödinger, Inc. ___ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinf

Re: [PyMOL] Graphics display not working

2018-09-06 Thread Jarrett Johnson
sites, Slashdot.org! http://sdm.link/slashdot > ___ > PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) > Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users > Archives: ht

Re: [PyMOL] Add to existing selection

2018-07-23 Thread Jarrett Johnson
e: https://lists.sourceforge.net/lists/listinfo/pymol-users > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > -- Jarrett Johnson, Schrödinger

Re: [PyMOL] Preventing Output of pair_fit

2018-07-23 Thread Jarrett Johnson
Hello Nathan, While we prepare to rollout the "quiet" argument for pair_fit, in the meantime try: cmd.feedback("disable", "executive", "results") Jarrett J. On Sun, Jul 22, 2018 at 6:47 PM, Jarrett Johnson < jarrett.john...@schrodinger.com>