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34 Open 14 Closed
34 Open 14 Closed
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Issues list

Bioflows fails to run on large SRR files bug
#73 opened Jan 23, 2021 by Nando1014
slurm 20 updates bug
#71 opened Jan 16, 2021 by JRWallace
generic run commands?
#69 opened Jan 14, 2021 by JRWallace
data layout from SRA is not reliable
#66 opened May 13, 2020 by aguang
Provide a few examples of how the suffix option works (see comment) documentation
#65 opened May 11, 2020 by JRWallace
Document all potential fields for run_parms documentation
#64 opened May 11, 2020 by JRWallace
There are essentially two tables of contents.. see comment documentation
#62 opened May 11, 2020 by JRWallace
Give a more descriptive error message for the 'bootstrap' error where a job ID isn't assigned
#61 opened May 11, 2020 by JRWallace
Are there any changes to the default arguments for any of the programs run in bioflows? documentation
#60 opened May 11, 2020 by JRWallace
Which programs are currently supported via bioflows? documentation
#59 opened May 11, 2020 by JRWallace
Add information about how to re-run analyses (e.g., do checkpoint files need to be deleted?) documentation
#58 opened Mar 18, 2020 by JRWallace
setup environment for bioflows docs is out of date
#57 opened Mar 18, 2020 by aguang
a lot of links don't work
#56 opened Mar 18, 2020 by aguang
remove ordered dict constraint
#55 opened Mar 18, 2020 by aguang
Some docs on yaml spec page are out of date documentation
#54 opened Mar 17, 2020 by JRWallace
1
Testing Clickup
#53 opened Jan 16, 2020 by ashokrags
add bowtie2 wrapper
#49 opened Sep 23, 2019 by JRWallace
clarify how changing input and output settings work when the default flag is set
#48 opened Sep 16, 2019 by JRWallace
documentation on how to contribute
#47 opened Aug 14, 2019 by aguang
humann2 wrappers FEATURE This request is not critical. Could be addressed in the next release
#44 opened Aug 13, 2019 by aguang
@aguang
Fix and standardize for all wrappers update input/output function for wrappers
#40 opened Apr 23, 2019 by ashokrags
refactor wrappers_samtools to update default args
#37 opened Apr 18, 2019 by ashokrags
refactor wrappers.py to update default args
#36 opened Apr 18, 2019 by ashokrags
refactor wrappers_picard to update default args
#35 opened Apr 18, 2019 by ashokrags
refactor wrappers_gatk to update default args
#34 opened Apr 18, 2019 by ashokrags
ProTip! Exclude everything labeled bug with -label:bug.