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43 Open 27 Closed
43 Open 27 Closed
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Issues list

outrigger --index error: "AttributeError: 'Series' object has no attribute 'iteritems'"
#104 opened May 8, 2023 by jordimaggi
1
sqlite3.OperationalError: disk I/O error
#103 opened Oct 22, 2021 by LiangShaw
ValueError: Cannot mask with non-boolean array containing NA / NaN values error
#102 opened Mar 15, 2021 by titand98
how to set multiple threads
#101 opened Dec 23, 2020 by fuhao1216
Database locked when detecting de novo exons after no novel exons found on a chromosome
#100 opened Aug 17, 2020 by QuentinLetourneur
KeyError: junction
#98 opened May 2, 2020 by wbvguo
2
Calculating PSI of single-cell data with outrigger
#96 opened Mar 19, 2020 by hmutpw
1
Unstacked DataFrame is too big, causing int32 overflow
#95 opened Mar 10, 2020 by Qi-Yang-Bioinfo
How to use outrigger index with "-c"?
#94 opened Nov 26, 2019 by QijinYin
NotImplementedError: "flankBed"
#93 opened Nov 13, 2019 by YutingMa68
Table 'GRCh37.chromInfo' doesn't exist // ERROR: chrom "14" not found in genome file. Exiting.
#89 opened May 15, 2018 by Ekomshiro
4
ERROR IN -- Creating a "gffutils" database ---"database is locked"
#88 opened Nov 23, 2017 by memooooooo
Core error when running outriger psi
#87 opened Aug 28, 2017 by cfbuenabadn
outrigger index looping forever while updating gffutils database with novel exons on chr10 (mm10)
#84 opened Jun 6, 2017 by alaindomissy
outrigger validate fails when outrigger_output/index/mxe/exon1.bed does not exist
#82 opened Apr 20, 2017 by ghost
2
outrigger index --splice-types error - KeyError: 'mxe'
#81 opened Apr 20, 2017 by ghost
1
Remember, flat is better than nested
#79 opened Apr 7, 2017 by olgabot
1
Be explicit about inputs/outputs
#78 opened Apr 7, 2017 by olgabot
Concatenate psi/se/summary.csv and psi/mxe/summary.csv
#72 opened Jan 6, 2017 by olgabot
Add link to Slack's empathy in pull requests link to PULL_REQUEST template
#71 opened Jan 6, 2017 by olgabot
Remove features with exon lengths==1
#70 opened Jan 6, 2017 by olgabot
Installing via environment.yml doesn't add command line entry points
#68 opened Dec 29, 2016 by olgabot
2
Case Xa/b doesn't show - only "Case Xa"
#67 opened Dec 22, 2016 by olgabot
If novel_exons.gtf exists, still gets overwritten
#66 opened Dec 22, 2016 by olgabot
When using an external junction reads file, copy to outrigger_output folder
#65 opened Dec 9, 2016 by olgabot
ProTip! no:milestone will show everything without a milestone.