# HADDOCK3 is taking an excessive amount of time to run

**URL:** <https://ask.bioexcel.eu/t/haddock3-is-taking-an-excessive-amount-of-time-to-run/6017>\
**Category:** HADDOCK\
**Tags:** haddock\
**Created:** [March 3, 2026, 1:58am UTC](https://ask.bioexcel.eu/t/haddock3-is-taking-an-excessive-amount-of-time-to-run/6017 "2026-03-03T01:58:58Z")\
**Posts on this page:** 2\
**Page:** 1

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**Author:** ![Miratowa](https://avatars.discourse-cdn.com/v4/letter/m/c77e96/32.png) [@Miratowa](https://ask.bioexcel.eu/u/Miratowa)\
**Post date:** [March 3, 2026, 1:58am UTC](https://ask.bioexcel.eu/t/haddock3-is-taking-an-excessive-amount-of-time-to-run/6017/1 "2026-03-03T01:58:58Z")

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I used HADDOCK3 to dock two proteins: one sequence is 331 residues long, the other is 49 residues long. The docking job I submitted has been running for four days now. Is it really supposed to take this long?

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**Author:** ![amjjbonvin](https://dub1.discourse-cdn.com/flex013/user_avatar/ask.bioexcel.eu/amjjbonvin/32/23_2.png) [@amjjbonvin](https://ask.bioexcel.eu/u/amjjbonvin)\
**Post date:** [March 3, 2026, 7:53am UTC](https://ask.bioexcel.eu/t/haddock3-is-taking-an-excessive-amount-of-time-to-run/6017/2 "2026-03-03T07:53:10Z")

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The HADDOCK3 server is in development… There are most likely issues.

I recommend using the 2.4 server instead.