# HADDOCK3 User Manual issue

**URL:** <https://ask.bioexcel.eu/t/haddock3-user-manual-issue/6072>\
**Category:** HADDOCK\
**Tags:** tutorials\
**Created:** [April 14, 2026, 11:07am UTC](https://ask.bioexcel.eu/t/haddock3-user-manual-issue/6072 "2026-04-14T11:07:16Z")\
**Posts on this page:** 4\
**Page:** 1

<div class="post-metadata">

**Author:** ![F-Mars](https://avatars.discourse-cdn.com/v4/letter/f/f1d935/32.png) [@F-Mars](https://ask.bioexcel.eu/u/F-Mars)\
**Post date:** [April 14, 2026, 11:07am UTC](https://ask.bioexcel.eu/t/haddock3-user-manual-issue/6072/1 "2026-04-14T11:07:16Z")

</div>

In the haddock3 manual, in **[8.7.](https://www.bonvinlab.org/haddock3-user-manual/docking_scenarios/refinement-protocols.html)**[Complexes refinement protocols](https://www.bonvinlab.org/haddock3-user-manual/docking_scenarios/refinement-protocols.html), the openMM simulation\_timesteps is set to 5000000; however, when trying this, an error: Value “5000000” is not in the allowed boundaries ranging from 0 to 1000000. Is the manual wrong?

---

<div class="post-metadata">

**Author:** ![VGPReys](https://dub1.discourse-cdn.com/flex013/user_avatar/ask.bioexcel.eu/vgpreys/32/960_2.png) [@VGPReys](https://ask.bioexcel.eu/u/VGPReys)\
**Post date:** [April 14, 2026, 11:20am UTC](https://ask.bioexcel.eu/t/haddock3-user-manual-issue/6072/2 "2026-04-14T11:20:19Z")

</div>

Indeed, there is an error.

There should be an additional 0 in the comment  
(5 000 000 \* 0.002 = 10 000 ps == 10 ns)  
And we should update the haddock3 code to allow for more.

I will correct it asap.  
Thanks for spotting !

---

<div class="post-metadata">

**Author:** ![VGPReys](https://dub1.discourse-cdn.com/flex013/user_avatar/ask.bioexcel.eu/vgpreys/32/960_2.png) [@VGPReys](https://ask.bioexcel.eu/u/VGPReys)\
**Post date:** [April 14, 2026, 1:01pm UTC](https://ask.bioexcel.eu/t/haddock3-user-manual-issue/6072/3 "2026-04-14T13:01:55Z")

</div>

Done : [increased allowed simluation steps in openmm by VGPReys · Pull Request #1516 · haddocking/haddock3 · GitHub](https://github.com/haddocking/haddock3/pull/1516)  
Please pull the main from GitHub and re-install haddock3 to enjoy the updated version.

---

<div class="post-metadata">

**Author:** ![VGPReys](https://dub1.discourse-cdn.com/flex013/user_avatar/ask.bioexcel.eu/vgpreys/32/960_2.png) [@VGPReys](https://ask.bioexcel.eu/u/VGPReys)\
**Post date:** [April 14, 2026, 1:05pm UTC](https://ask.bioexcel.eu/t/haddock3-user-manual-issue/6072/4 "2026-04-14T13:05:26Z")

</div>

Finally, please note that, as stated in [this obscure paragraph in the middle of the haddock3-user-manual](https://www.bonvinlab.org/haddock3-user-manual/modules_parameters.html#definition-of-default-parameter-values), one can modify the limit of a parameter by hand, to fit its requirements.