NMR POKY/SPARKY USER GROUP

Contact owners and managers

1–30 of 280

This group is opened to announce news and discuss QnAs for POKY (new) and SPARKY (outdated) users. POKY from Woonghee Lee's group is available from https://poky.clas.ucdenver.edu. POKY is the modern software suite provides automated and visualized tools for multinuclear NMR data analysis including peak analysis, resonance assignment, titration and dynamics studies, 3D structure calculation, etc. Please check if your problem also exists in the latest version of POKY before asking. You can use POKY in NMRbox as well (just type "poky"). Cite https://doi.org/10.1093/bioinformatics/btab180 for POKY (new) and https://doi.org/10.1093/bioinformatics/btu830 for NMRFAM-SPARKY (outdated).

Tom Goddard from UCSF Ferrin Lab. archived past message from Yahoo Groups: https://www.cgl.ucsf.edu/home/sparky/yahoo/msg_index.html

POKY Tutorial Videos are available from YouTube: https://youtube.com/playlist?list=PLmYqoarOFAZ-d8rOCsrpir3-GPBxpSoo1

NMRFAM-SPARKY Tutorial Videos are also available from YouTube: https://www.youtube.com/playlist?list=PLmYqoarOFAZ-aInZ5uM2pV63e7yMSHSuZ

0 selected

Lee, Woonghee, stefano ciurli6

Apr 20

Re: [NMR POKY/SPARKY] Reassignment and probabilit score

Thank you!! Sent from Outlook for iOS From: Lee, Woonghee <WOONGH...@UCDENVER.EDU> Sent:

unread,

Re: [NMR POKY/SPARKY] Reassignment and probabilit score

Thank you!! Sent from Outlook for iOS From: Lee, Woonghee <WOONGH...@UCDENVER.EDU> Sent:

Apr 20

Aakanksha Singh, Lee Group2

Apr 17

Problem in save files

Please place files in the other location not icloud. On Wed, Apr 17, 2024 at 1:42 AM Aakanksha Singh

unread,

Problem in save files

Please place files in the other location not icloud. On Wed, Apr 17, 2024 at 1:42 AM Aakanksha Singh

Apr 17

Leonel Bustamante Carballo, Lee, Woonghee3

Apr 5

Leonel, Would you make sure you are using the latest version of POKY and include more lines around

unread,

Leonel, Would you make sure you are using the latest version of POKY and include more lines around

Apr 5

Marco Sette, … Lee, Woonghee9

Apr 3

Cyana to Sparky/Poky

Perfect for me Thanks Marco Il giorno mer 3 apr 2024 alle ore 14:46 Lee, Woonghee <WOONGHEE.LEE@

unread,

Cyana to Sparky/Poky

Perfect for me Thanks Marco Il giorno mer 3 apr 2024 alle ore 14:46 Lee, Woonghee <WOONGHEE.LEE@

Apr 3

romania...@gmail.com, Lee, Woonghee2

Apr 2

Strip Plot not working in BMRB version

David, There's no BMRB version of POKY. POKY is always from me. I think you are referring to

unread,

Strip Plot not working in BMRB version

David, There's no BMRB version of POKY. POKY is always from me. I think you are referring to

Apr 2

riddhiman sarkar, Lee, Woonghee2

Apr 2

peak list in Xeasy format

"xe" will do the job. "iP" can be used in general. If you want to limit ranges

unread,

peak list in Xeasy format

"xe" will do the job. "iP" can be used in general. If you want to limit ranges

Apr 2

Gabriel Alcántara, Lee, Woonghee2

Apr 1

How to extract peaks from a BMRB and run into Poky [POKY QUESTION]

Please follow this video. https://youtu.be/5215ofvgpbo?feature=shared Woonghee Lee, IEIP, MS, Ph.D.

unread,

How to extract peaks from a BMRB and run into Poky [POKY QUESTION]

Please follow this video. https://youtu.be/5215ofvgpbo?feature=shared Woonghee Lee, IEIP, MS, Ph.D.

Apr 1

Yuliya Miloslavina, … Lee, Woonghee4

Mar 28

[POKY Question]

SIA, Poky is kind of complicated to use and there aren't many informative videos on it's use

unread,

[POKY Question]

SIA, Poky is kind of complicated to use and there aren't many informative videos on it's use

Mar 28

Mar 21

A webinar for NJACS

Dear all, I am giving an webinar talk for NJACS in 30 minutes (noon EDT). If you are interested in

unread,

A webinar for NJACS

Dear all, I am giving an webinar talk for NJACS in 30 minutes (noon EDT). If you are interested in

Mar 21

Fred Muskett, Lee, Woonghee7

Mar 21

Spin graph not working

Dear Woonghee, That's great, everything now works as expected. Best regards, Fred On 20 Mar 2024,

unread,

Spin graph not working

Dear Woonghee, That's great, everything now works as expected. Best regards, Fred On 20 Mar 2024,

Mar 21

박형준, Lee, Woonghee2

Mar 20

poky does not run

Have you installed MSVC runtime? If not, please do so. Use poky.bat not poky.exe in Windows.

unread,

poky does not run

Have you installed MSVC runtime? If not, please do so. Use poky.bat not poky.exe in Windows.

Mar 20

염지우, Lee, Woonghee8

Mar 19

w1 & w3 axies are exchanged during 'View in Spectrum' in POKY Analyzer validation tool.

Thank you so much for your kind support. Now I can handle this problem. Sincerely, Jiwoo Yeom. 2024년

unread,

w1 & w3 axies are exchanged during 'View in Spectrum' in POKY Analyzer validation tool.

Thank you so much for your kind support. Now I can handle this problem. Sincerely, Jiwoo Yeom. 2024년

Mar 19

Huy Ngo, Lee, Woonghee2

Mar 17

How to do the peak list referencing/shifting

Dear Huy, If all the peaks are shifted uniformly, you can use "st" to offset before

unread,

How to do the peak list referencing/shifting

Dear Huy, If all the peaks are shifted uniformly, you can use "st" to offset before

Mar 17

Adedolapo Ojoawo, Lee, Woonghee4

Mar 15

RDC value calculation in POKY

I got it with command xh. Thanks Dolapo On Friday, March 15, 2024 at 2:19:53 PM UTC-4 Adedolapo

unread,

RDC value calculation in POKY

I got it with command xh. Thanks Dolapo On Friday, March 15, 2024 at 2:19:53 PM UTC-4 Adedolapo

Mar 15

Nicole Fazio, Lee, Woonghee2

Mar 8

solid state NMR data

First, you can pick peaks by ctrl+drag select while you are in select mode (F1 or 11). Or you can

unread,

solid state NMR data

First, you can pick peaks by ctrl+drag select while you are in select mode (F1 or 11). Or you can

Mar 8

Arun Gupta, Lee, Woonghee2

Mar 6

Synchronization view of assigned cross-peak in 3D spectra

Arun, Don't you use the “yt” synchronization tool? “LC” will bring old NMRFAM workshop videos,

unread,

Synchronization view of assigned cross-peak in 3D spectra

Arun, Don't you use the “yt” synchronization tool? “LC” will bring old NMRFAM workshop videos,

Mar 6

Laurène Adam, Lee Group3

Mar 6

Relaxation data - data selection problem

I meant for the numerical characters. Also no special characters other than under bar. On Wed, Mar 6,

unread,

Relaxation data - data selection problem

I meant for the numerical characters. Also no special characters other than under bar. On Wed, Mar 6,

Mar 6

Mar 6

Pipe to ucsf conversion

Hi, problem solved. The fid.com script had the wrong number of dimensions... Best, Marco Il giorno

unread,

Pipe to ucsf conversion

Hi, problem solved. The fid.com script had the wrong number of dimensions... Best, Marco Il giorno

Mar 6

Adedolapo Ojoawo, Lee, Woonghee2

Mar 4

opening multiple spectra at once

Drag'n drop would be the easiest. -- Woonghee Lee, Ph.D. Assistant Professor of Chemistry

unread,

opening multiple spectra at once

Drag'n drop would be the easiest. -- Woonghee Lee, Ph.D. Assistant Professor of Chemistry

Mar 4

Nicholas Fitzkee, Lee, Woonghee2

Feb 23

POKY Assignment Copy and Finding Files

Dear Nick, For the first question: You have to “show selected labels (ls)” after “pa” if labels haven

unread,

POKY Assignment Copy and Finding Files

Dear Nick, For the first question: You have to “show selected labels (ls)” after “pa” if labels haven

Feb 23

Thomas Evangelidis, Lee, Woonghee4

Feb 23

extract 2D slice from 4D spectrum at specified positions of the w3 and w4 axes

Thomas, Let me just give you a simple hint, -wN accepts indices not ppm. I cannot consult beyond this

unread,

extract 2D slice from 4D spectrum at specified positions of the w3 and w4 axes

Thomas, Let me just give you a simple hint, -wN accepts indices not ppm. I cannot consult beyond this

Feb 23

Tsung-Lun Hsieh, Lee, Woonghee2

Feb 16

Change color of spectrum with POKY notepad

Dear Tsung-Lun, Try to take levels in the different variable, set the color and set the levels back

unread,

Change color of spectrum with POKY notepad

Dear Tsung-Lun, Try to take levels in the different variable, set the color and set the levels back

Feb 16

James Gibson, Lee, Woonghee9

Feb 7

Files won't save in POKY in NMRBox

I had not. That resolved the issue. On Tuesday, February 6, 2024 at 1:44:20 PM UTC-5 Lee, Woonghee

unread,

Files won't save in POKY in NMRBox

I had not. That resolved the issue. On Tuesday, February 6, 2024 at 1:44:20 PM UTC-5 Lee, Woonghee

Feb 7

Kat Tea, Lee, Woonghee11

Jan 26

Poky has no windows when open

I think you accidentally moved “poky.app” to somewhere and ran the installation script. So empty

unread,

Poky has no windows when open

I think you accidentally moved “poky.app” to somewhere and ran the installation script. So empty

Jan 26

Luis Cardona, Lee, Woonghee9

Jan 26

Problem with NG-Plot

Yes, it works now! Thank you so much! :) El jueves, 25 de enero de 2024 a la(s) 8:26:46 pm UTC-6, Lee

unread,

Problem with NG-Plot

Yes, it works now! Thank you so much! :) El jueves, 25 de enero de 2024 a la(s) 8:26:46 pm UTC-6, Lee

Jan 26

Kat Tea, Lee, Woonghee4

Jan 25

Tick marks and key

Type “pt” and save as a PDF or PS. If you need some more specific information on it, you can just use

unread,

Tick marks and key

Type “pt” and save as a PDF or PS. If you need some more specific information on it, you can just use

Jan 25

Arun Gupta, Lee, Woonghee2

Jan 25

Poky license issue, POKY BUILD 20231127 version

Hi Arub, That is not SSL issue. I think that is related to windows update that maybe changed your

unread,

Poky license issue, POKY BUILD 20231127 version

Hi Arub, That is not SSL issue. I think that is related to windows update that maybe changed your

Jan 25

Tyrone Thames, Lee, Woonghee3

Jan 24

Trouble Converting 3D NMR spectra to ucsf for use in POKY

Thank you! I was just taught how to get the 2rr and 3rrr files from TopSpin and using the buttons you

unread,

Trouble Converting 3D NMR spectra to ucsf for use in POKY

Thank you! I was just taught how to get the 2rr and 3rrr files from TopSpin and using the buttons you

Jan 24

Arun Gupta, Lee, Woonghee2

Jan 19

Poky Publication Quality Pdf files

Dear Arun, If you place labels close to the cross peak, it won't show any traces. If you don'

unread,

Poky Publication Quality Pdf files

Dear Arun, If you place labels close to the cross peak, it won't show any traces. If you don'

Jan 19

hsin wang, Lee, Woonghee4

Jan 12

GLIBC_2.29 on CentOS7

Dear Hsin, I am wondering if the permission problem is on the centos server or the files in the

unread,

GLIBC_2.29 on CentOS7

Dear Hsin, I am wondering if the permission problem is on the centos server or the files in the

Jan 12

Search

Clear search

Close search

Google apps

Main menu