NAMD Survey 2005

Theoretical and Computational Biophysics Group
NAMD Survey 2005
NIH Resource for Macromolecular Modeling and Bioinformatics

Dear NAMD User:
Our records indicate that you have downloaded a copy of NAMD 2.5 from our website. We are delighted that you are using our software and hope that it serves you well. As part of our ongoing efforts to ensure that our programs are up-to-date, relevant and of high quality, we are seeking feedback from all of our users. Your input will help us steer NAMD in directions which are most responsive to your needs.
We would appreciate it if you would take a few minutes to complete the NAMD questionnaire by April 22, 2005. The information you provide to us will be confidential. A report summarizing the results will be posted on the NAMD website.
Thank you.
The NAMD Development and TCB Evaluation Teams
namd@ks.uiuc.edu

E-mail address:
Affiliation:

Academic Government Industry Other (specify)
My level of expertise with molecular modeling is

Very Low Low Moderate High Very High
My level of expertise with NAMD is

Very Low Low Moderate High Very High
The work I do with NAMD is funded (at least partially) by NIH:

Yes No

I primarily use NAMD on

Desktop:	Windows	Linux	Mac OS X	Other Unix
Parallel:	Local Linux Cluster		Large Supercomputer
	Other (specify)

I use NAMD primarily for

Research Teaching Business Personal
The number of people using NAMD at my site is

1 2-4 5-10 11-20 21 or more
I use NAMD for of my molecular dynamics simulations.

All Most Some None I don't use molecular dynamics

I use NAMD because it

1-Strongly Disagree, 2-Disagree, 3-Unsure, 4-Agree, 5-Strongly Agree

a) meets my needs		1	2	3	4	5
a) meets my needs	Strongly Disagree						Strongly Agree
b) is free		1	2	3	4	5
b) is free	Strongly Disagree						Strongly Agree
c) includes source code		1	2	3	4	5
c) includes source code	Strongly Disagree						Strongly Agree
d) is user friendly		1	2	3	4	5
d) is user friendly	Strongly Disagree						Strongly Agree
e) is better than other molecular dynamics programs		1	2	3	4	5
e) is better than other molecular dynamics programs	Strongly Disagree						Strongly Agree
f) is critical for my work		1	2	3	4	5
f) is critical for my work	Strongly Disagree						Strongly Agree

I have downloaded the NAMD source code to

a) examine algorithms	Yes	No
b) compile executables	Yes	No
c) locate bugs	Yes	No
d) add new features	Yes	No
e) reuse in my own programs	Yes	No

I primarily generate input files for NAMD with

VMD/psfgen X-PLOR CHARMM AMBER GROMACS

Other (specify)

Rate the importance of these PLANNED features to your work:

1-Very Unimportant, 2-Unimportant, 3-Unsure, 4-Important, 5-Very Important

a) Improved serial performance		1	2	3	4	5
a) Improved serial performance	Very Unimportant						Very Important
b) SSE/Altivec acceleration		1	2	3	4	5
b) SSE/Altivec acceleration	Very Unimportant						Very Important
c) Add-in hardware acceleration		1	2	3	4	5
c) Add-in hardware acceleration	Very Unimportant						Very Important
d) Scaling on 100's of CPUs		1	2	3	4	5
d) Scaling on 100's of CPUs	Very Unimportant						Very Important
e) Scaling for small molecules		1	2	3	4	5
e) Scaling for small molecules	Very Unimportant						Very Important
f) Repeatable parallel runs		1	2	3	4	5
f) Repeatable parallel runs	Very Unimportant						Very Important
g) Fault tolerance & recovery		1	2	3	4	5
g) Fault tolerance & recovery	Very Unimportant						Very Important
h) Automated simulation setup		1	2	3	4	5
h) Automated simulation setup	Very Unimportant						Very Important
i) Improved user interface		1	2	3	4	5
i) Improved user interface	Very Unimportant						Very Important
j) Easier to extend source code		1	2	3	4	5
j) Easier to extend source code	Very Unimportant						Very Important
k) Implicit solvent models		1	2	3	4	5
k) Implicit solvent models	Very Unimportant						Very Important
l) Polarizable force fields		1	2	3	4	5
l) Polarizable force fields	Very Unimportant						Very Important
m) Quantum/classical simulations		1	2	3	4	5
m) Quantum/classical simulations	Very Unimportant						Very Important
n) Trajectory analysis suite		1	2	3	4	5
n) Trajectory analysis suite	Very Unimportant						Very Important

Rate your agreement with these statements describing NAMD:

1-Strongly Disagree, 2-Disagree, 3-Unsure, 4-Agree, 5-Strongly Agree

a) NAMD is a well written program		1	2	3	4	5
a) NAMD is a well written program	Strongly Disagree						Strongly Agree
b) NAMD developers respond to my requests		1	2	3	4	5
b) NAMD developers respond to my requests	Strongly Disagree						Strongly Agree
c) NAMD support meets my needs		1	2	3	4	5
c) NAMD support meets my needs	Strongly Disagree						Strongly Agree
d) NAMD documentation is clear		1	2	3	4	5
d) NAMD documentation is clear	Strongly Disagree						Strongly Agree
e) NAMD documentation is complete		1	2	3	4	5
e) NAMD documentation is complete	Strongly Disagree						Strongly Agree

I am satisfied with NAMD

		1	2	3	4	5
	Strongly Disagree						Strongly Agree

NAMD has improved the quality of my work

		1	2	3	4	5
	Strongly Disagree						Strongly Agree

I would cite my use of NAMD in resulting publications

		1	2	3	4	5
	Strongly Disagree						Strongly Agree

I consider myself a user of

a) VMD Yes No

b) BioCoRE Yes No
What suggestions do you have for improving NAMD and NAMD support:

	Overview	Research	Development	Dissemination	Services