# Bismark Meth. Extractor not generating coverage files

**URL:** <https://help.galaxyproject.org/t/bismark-meth-extractor-not-generating-coverage-files/6125>\
**Category:** usegalaxy.eu support\
**Tags:** tool-install, bismark\_methylation\_extractor\
**Created:** [June 7, 2021, 1:28pm UTC](https://help.galaxyproject.org/t/bismark-meth-extractor-not-generating-coverage-files/6125 "2021-06-07T13:28:56Z")\
**Posts on this page:** 1\
**Showing post:** 6

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**Author:** ![David](https://sea2.discourse-cdn.com/flex020/user_avatar/help.galaxyproject.org/david/32/7031_2.png) [@David](https://help.galaxyproject.org/u/David)\
**Post date:** [June 7, 2021, 7:28pm UTC](https://help.galaxyproject.org/t/bismark-meth-extractor-not-generating-coverage-files/6125/6 "2021-06-07T19:28:01Z")

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Sorry! I showed the text from the log file, but I meant the text in the `Commmand Line` field, from the `Job Information`

> python ‘/opt/galaxy/shed\_tools/toolshed.g2.bx.psu.edu/repos/bgruening/bismark/ff6ee551b153/bismark/bismark\_methylation\_extractor.py’ --multicore “${GALAXY\_SLOTS:-4}” --infile ‘/data/dnb03/galaxy\_db/files/f/5/b/dataset\_f5b173bc-5683-4e3a-aae9-bbfab0223a5b.dat’ --single-end --splitting\_report ‘/data/dnb03/galaxy\_db/job\_working\_directory/022/607/22607745/outputs/galaxy\_dataset\_d5147783-6aac-4b1f-ab32-0634ac21f788.dat’ --mbias\_report ‘/data/dnb03/galaxy\_db/job\_working\_directory/022/607/22607745/outputs/galaxy\_dataset\_9855a442-64fa-4f61-9305-d4f581661ad8.dat’ --cytosine\_report ‘/data/dnb03/galaxy\_db/job\_working\_directory/022/607/22607745/outputs/galaxy\_dataset\_5a7de963-e281-40a2-af49-df099dde7ebb.dat’ --genome\_file ‘/data/db/data\_managers/h7n7\_360722/seq/h7n7\_360722.fa’ --cx\_context --comprehensive --compress  
> ‘/data/dnb03/galaxy\_db/job\_working\_directory/022/607/22607745/outputs/galaxy\_dataset\_d1e0feca-7641-4b02-84e6-7dff0081a634.dat’ --log\_report ‘/data/dnb03/galaxy\_db/job\_working\_directory/022/607/22607745/outputs/galaxy\_dataset\_61ded233-440e-4bf5-81b8-9214fa10b5d8.dat’

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