galaxyproject/usegalaxy-playbook

Issues

• Database joins not using indexes

  #381 opened 9 months ago by mvdbeek
  8

• Latest version tool not visible in toolshed

  #387 opened 10 months ago by bedroesb
  0

• FTP connection fails at UseGalaxy.org: Server-side issue 02/18/2022

  #355 opened a year ago by jennaj
  1

• do we want to include these certbot role files?

  #372 opened 2 years ago by martenson
  0

• Add indexes for SortMeRNA

  #369 opened 2 years ago by jennaj
  0

• Update mafft to 7.489+galaxy0

  #351 opened 2 years ago by jennaj
  3

• Add indexes for BWA-MEM2

  #368 opened 2 years ago by jennaj
  0

• Export to FTP is still "possible"

  #362 opened 2 years ago by mvdbeek
  1

• annotatemyids dependency problem on usegalaxy.org

  #366 opened 2 years ago by natefoo
  2

• BUSCO: database problem

  #350 opened 2 years ago by gallardoalba
  0

• On usegalaxy.org, some tools fail if a history has a 'training' tag

  #361 opened 3 years ago by cat-bro
  3

• Test taxonomy_krona_chart 2.7.1

  #360 opened 3 years ago by jennaj
  1

• annovar reference data missing [was ANNOVAR Annotate VCF producing 0 lines]

  #349 opened 3 years ago by ewaugh1
  0

• Kraken2: clone indexes hosted at EU over to CMVFS

  #359 opened 3 years ago by jennaj
  0

• Update Circos tool suite at usegalaxy.org

  #346 opened 3 years ago by jennaj
  9

• Install build_ucsc_custom_track_1 1.0.1 (bug fix)

  #357 opened 3 years ago by jennaj
  0

• Same BUSCO scores for different augustus species when using v5 in the same lineage

  #356 opened 3 years ago by biowackysci
  0

• Prokka 1.14.6+galaxy1 = missing dependency

  #354 opened 3 years ago by jennaj
  13

• Execution error: ebi_search_rest_results 0.1.1

  #353 opened 3 years ago by jennaj
  0

• Execution error: ebi_metagenomics_run_downloader 0.1.0

  #352 opened 3 years ago by jennaj
  0

• BWA-meth built-in reference genomes in *.org

  #348 opened 3 years ago by gallardoalba
  4

• Problem with Galaxy + repeat explorer

  #339 opened 3 years ago by CornilleAmandine
  1

• Trinity error

  #342 opened 3 years ago by vietdungria
  1

• Update GATK4 Mutect2

  #345 opened 3 years ago by jennaj
  1

• Update CutAdapt to capture bug fixes

  #347 opened 3 years ago by jennaj
  2

• Update to Circos 0.69.8+galaxy7 at usegalaxy.org

  #313 opened 4 years ago by jennaj
  1

• Allowlist: output from glimma DE Plot tool

  #338 opened 4 years ago by hexylena
  0

• BLAST failures at usegalaxy.org

  #318 opened 4 years ago by jennaj
  5

• Add JBrowse to sanitize_allowlist

  #333 opened 4 years ago by abretaud
  2

• Deploy Jupyter GxIT on usegalaxy.org

  #326 opened 4 years ago by hexylena
  1

• GOEnrichment tool has extended queue state at usegalaxy.eu but executes at usegalaxy.org -- GTN tutorial

  #332 opened 4 years ago by jennaj
  1

• Trinity v2.9.1 fails immediately with input collection type "listpaired"

  #308 opened 4 years ago by jennaj
  2

• Published Pages associated with purged accounts are still published

  #300 opened 4 years ago by jennaj
  7

• Unicycler 0.4.8.0 and Spades 3.12.0+galaxy1 fail at usegalaxy.org

  #317 opened 4 years ago by jennaj
  3

• Multiple 2bit references being loaded for hg19

  #320 opened 4 years ago by NickSto
  5

• tool error

  #316 opened 4 years ago by sharmavikas44
  1

• Storage roadmap

  #325 opened 4 years ago by hexylena
  0

• iRODS

  #324 opened 4 years ago by hexylena
  0

• Mark as deprecated at usegalaxy.org: Velvet[h|g] and VelvetOptimiser (all versions)

  #321 opened 4 years ago by jennaj
  1

• Histogram of a numeric column

  #309 opened 4 years ago by BJWiley233
  2

• RNA STAR fails on certain indeces

  #310 opened 4 years ago by martenson
  1

• MultiQC fails when input datasets that have the same dataset name/label -- tool issue

  #315 opened 4 years ago by jennaj
  0

• Conda job environment problems at usegalaxy.org

  #314 opened 4 years ago by jennaj
  1

• Genomic fasta indexes undergoing updates at usegalaxy.org

  #311 opened 4 years ago by jennaj
  1

• Jetstream: Fails RNA-STAR 2.7.5b

  #306 opened 4 years ago by jennaj
  4

• Jetstream: Fails BWA + BWA-MEM

  #307 opened 4 years ago by jennaj
  2

• Cannot open usegalaxy.org anymore

  #305 opened 4 years ago by sarmisthan
  1

• Dependency issue with main galaxy tool- tRNA_prediction

  #301 opened 4 years ago by herbercr
  4

• Newly created account or reset passwords fail with FTP Upload

  #299 opened 5 years ago by jennaj
  0

• Scatterplot w ggplot2 (Galaxy Version 2.2.1+galaxy1) fails at usegalaxy.org

  #298 opened 5 years ago by jennaj
  3