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58 Open 128 Closed
58 Open 128 Closed
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Issues list

Test against 22.01
#602 opened Feb 4, 2022 by mvdbeek
2
Unused tool parameters
#601 opened Jan 24, 2022 by bernt-matthias
1 task
1
Fix gifs in Get flanks tool description
#597 opened Oct 28, 2021 by millen2223
4
Cuffdiff 2.2.1.5 SQLite option results in job failures deprecated
#509 opened Jul 19, 2018 by jennaj
@davebx
9
Enhancement: Upgrade Fastq interlacer 1.2.0 and de-interlacer 1.1.1 to work with Illumina 1.8+ identifiers
#488 opened Oct 3, 2017 by jennaj
gi2taxonomy seems outdated
#483 opened Aug 28, 2017 by bernt-matthias
3
Annovar v0.2 is problematic and needs a correction. bug
#480 opened Jul 25, 2017 by jennaj
fastq_paired_end_joiner does not work with read 3 or read 4 from Illumina bug enhancement
#479 opened Jul 25, 2017 by lparsons
Unsorted BAM output for bwa mem?
#478 opened Jul 25, 2017 by dpryan79
2
Adding MiniKrakenDB and SILVA to Kraken Data manager?
#443 opened Jan 25, 2017 by vebaev
1
Bamtools Filter BAM triggers a combined job instead of distinct jobs with version 2 bug
#440 opened Jan 17, 2017 by jennaj
Enhance/normalize "Picard Normalize Fasta" default settings and better link-in custom genome formatting enhancement
#433 opened Jan 14, 2017 by jennaj
Picard FixMateInformation does not launch individual jobs when multiple datasets are selected bug
#421 opened Dec 14, 2016 by jennaj
GitHub and ToolShed are out of sync
#416 opened Nov 22, 2016 by blankenberg
2 tasks
2
Consistency with Rpy 1 and NumPy packages and tools, e.g. linear_regression bug
#415 opened Nov 22, 2016 by blankenberg
4
list of high profile tools to move to IUC
#406 opened Oct 29, 2016 by martenson
2 tasks done
@martenson
5
Update SICER to include more genome builds (ideally all on the instance) enhancement software update
#390 opened Sep 14, 2016 by jennaj
2
Rsync with G2 search function no longer functioning on latest build
#387 opened Sep 2, 2016 by djevo1
How to access a genome fasta index (FAI) build with data_manager_sam_fasta_index_builder (qustion also on biostars)
#362 opened Mar 31, 2016 by chrausch
2
Clean up cuffdiff (maybe others) collection hacks.
#342 opened Mar 2, 2016 by jmchilton
@davebx
cummeRbund 1.0.1 error - plots fail against sqlite database content bug wip
#340 opened Feb 24, 2016 by methylome
@davebx
9
Add option for "BAMTools Convert, Merge, Randomize" to process a collection as a group
#339 opened Feb 24, 2016 by jennaj
BAMtools "Convert, Merge, Randomize" - "Random" option requires sorted input
#338 opened Feb 24, 2016 by jennaj
gops subtract broken bug
#333 opened Feb 9, 2016 by dannon
5
Add CreateSequenceDictionary to Picard Tools
#331 opened Feb 4, 2016 by sszakony
2
ProTip! Exclude everything labeled bug with -label:bug.