# Errors msgs in haddock.out

**URL:** https://ask.bioexcel.eu/t/errors-msgs-in-haddock-out/5961
**Category:** HADDOCK
**Created:** [December 4, 2025, 2:41pm UTC](https://ask.bioexcel.eu/t/errors-msgs-in-haddock-out/5961 "2025-12-04T14:41:13Z")
**Posts on this page:** 2
**Page:** 1

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### Author: ![leopalmieri](https://avatars.discourse-cdn.com/v4/letter/l/aca169/32.png) [@leopalmieri](https://ask.bioexcel.eu/u/leopalmieri)
#### Post date: [December 4, 2025, 2:41pm UTC](https://ask.bioexcel.eu/t/errors-msgs-in-haddock-out/5961/1 "2025-12-04T14:41:13Z")

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Hello,

I’m getting errors msgs in haddock.out. Docking run seems to be finished and OK, but I don’t know if such errors are affecting my docking results. Msgs are listed bellow:

…

[2025-11-27 19:18:49] Only files for structure #1 will be kept…  
[2025-11-27 19:18:49]  
Traceback (most recent call last):  
File “/trinity/rascar/enmr/software/haddock2.5-grid/haddock/run\_haddock.py”, line 1788, in  
main()  
File “/trinity/rascar/enmr/software/haddock2.5-grid/haddock/run\_haddock.py”, line 1784, in main  
messages.stop\_haddock(exit\_code=0)  
TypeError: stop\_haddock() got an unexpected keyword argument ‘exit\_code’  
[2025-11-27 19:18:49]

Then HADDOCK2.5 seems to restart, but got another error msg:

…

[2025-11-27 19:19:09] Only files for structure #1 will be kept…  
[2025-11-27 19:19:09]  
Traceback (most recent call last):  
File “/trinity/rascar/enmr/software/haddock2.5-grid/haddock/run\_haddock.py”, line 1788, in  
main()  
File “/trinity/rascar/enmr/software/haddock2.5-grid/haddock/run\_haddock.py”, line 1784, in main  
messages.stop\_haddock(exit\_code=0)  
TypeError: stop\_haddock() got an unexpected keyword argument ‘exit\_code’  
Only files for structure #1 will be kept…

- BEGIN: Thu Nov 27 19:19:29 2025
- Parsing 201 contact files
- Calculating Matrix
- Writing matrix to
- END: Thu Nov 27 19:19:29 2025 [0.01 seconds elapsed]  
mv: No match.  
/trinity/rascar/enmr/csb\_webserver/data/results/haddock24/7667502933/590814-SPRDHLS/structures/it1/water/CAPRI\_analysis/../analysis//RMSD\_Calc.sh: line 58: [: ==: unary operator expected  
/trinity/rascar/enmr/csb\_webserver/data/results/haddock24/7667502933/590814-SPRDHLS/structures/it1/water/CAPRI\_analysis/../analysis//RMSD\_Calc.sh: line 192: [: missing `]' /trinity/rascar/enmr/csb_webserver/data/results/haddock24/7667502933/590814-SPRDHLS/structures/it1/water/CAPRI_analysis/../analysis//RMSD_Calc.sh: line 58: [: ==: unary operator expected /trinity/rascar/enmr/csb_webserver/data/results/haddock24/7667502933/590814-SPRDHLS/structures/it1/water/CAPRI_analysis/../analysis//RMSD_Calc.sh: line 192: [: missing `]’  
rm: No match.  
/usr/bin/ls: write error: Broken pipe

Am I missing something?

Thanks in advance!

Best regards.

Leo.

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<div class="post-metadata">

### 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: [December 4, 2025, 9:55pm UTC](https://ask.bioexcel.eu/t/errors-msgs-in-haddock-out/5961/2 "2025-12-04T21:55:08Z")

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If the results page on the server looks ok I would not worry about it.