peterjc/galaxy_blast

Issues

• RPStblastn subject defline(s) option not taken into account

  #165 opened a year ago by marieBvr
  3

• NCBI BLAST+ blastn overflow error with NCBI NT 2023-09-01 Nucleotide BLAST database

  #156 opened a year ago by kysrpex
  6

• NCBI BLAST 2.15.0 makes parallelism extension redundant

  #160 opened a year ago by peterjc
  0

• Add metadata column to tabular output

  #155 opened 2 years ago by bgruening
  0

• blast2go.loc.sample file not available

  #154 opened 2 years ago by gallardoalba
  2

• [help] Huge Memory Consumption For blastn

  #141 opened 2 years ago by hmyh1202
  2

• Replace TravisCI for testing

  #140 opened 2 years ago by peterjc
  2

• makeblastdb -max_file_sz

  #63 opened 10 years ago by bgruening
  30

• Latest Blast

  #146 opened 3 years ago by Sivanandan
  3

• Window_size bug

  #143 opened 3 years ago by mthang
  2

• Problem with Blast2GO wrapper

  #139 opened 4 years ago by gallardoalba
  4

• Link to Galaxy's ncbi_taxonomy.loc

  #111 opened 7 years ago by peterjc
  1

• Migrate the BLAST datatypes back into Galaxy core

  #75 opened 5 years ago by peterjc
  5

• Use BioConda for dependencies on TravisCI

  #94 opened 5 years ago by peterjc
  1

• blastdbcmd broken when used with several databases

  #116 opened 5 years ago by FredericBGA
  11

• Expand blastdbcmd wrapper to accept DB from history

  #125 opened 5 years ago by peterjc
  6

• Support for BLAST DB v5

  #124 opened 5 years ago by peterjc
  2

• Support for BLAST XML v2

  #65 opened 10 years ago by peterjc
  2

• makeblastdb file output appears to be too big

  #122 opened 5 years ago by balags1
  5

• Query-anchored and Flat query-anchored (text/html) output with identities

  #121 opened 5 years ago by peterjc
  0

• TravisCI has broken on the dev branch

  #120 opened 5 years ago by peterjc
  9

• Add better HTML output report option

  #64 opened 6 years ago by pieterlukasse
  8

• tool installs fine from devshed but fails to run: cannot find executable even though it is installed

  #118 opened 6 years ago by bifxcore
  4

• Complete gzipped FASTA query support

  #113 opened 6 years ago by peterjc
  1

• Strip NCBI identifiers from FASTA ID's

  #79 opened 6 years ago by mmokrejs
  3

• TravisCI - moving linting to separate stage

  #109 opened 6 years ago by peterjc
  1

• Problems with NCBI BLAST+ 2.5.0 and dependency errors installing from the tool shed

  #99 opened 6 years ago by charesredhat
  3

• Seq-hash to load input data

  #107 opened 7 years ago by ShriramK
  3

• mysterious list index out of range error

  #110 opened 6 years ago by cheberling
  11

• Support compressed FASTA files as input

  #101 opened 7 years ago by peterjc
  1

• 'gapopen' require a 'value' setting and optionally a default value which must be an integer

  #108 opened 7 years ago by peterjc
  0

• Tool shed installation stuck at 'setting_tool_versions'

  #104 opened 7 years ago by BertBog
  3

• Update to BLAST+ 2.6.0 or straight to 2.7.0

  #93 opened 7 years ago by nsoranzo
  15

• customize output columns in blast_rbh?

  #100 opened 7 years ago by cheberling
  7

• Update NCBI URL for command line manual

  #97 opened 7 years ago by peterjc
  6

• Support for -culling_limit

  #95 opened 8 years ago by nathanweeks
  3

• Additional blastp parameters

  #91 opened 7 years ago by caleb-easterly
  4

• Use <param argument="..." .../>

  #68 opened 8 years ago by peterjc
  1

• Conda support

  #88 opened 8 years ago by lecorguille
  12

• Odd behaviour with ncbi blast+ wrapper blastdb.loc file being ignored.

  #80 opened 8 years ago
  8

• Pipes can't be contained in blastdbcmd identifiers

  #87 opened 8 years ago by dpryan79
  12

• Describe tabular output column names in Galaxy metadata

  #84 opened 9 years ago by peterjc
  4

• [ncbi_*blast*_wrapper.xml] Add a way to use all needed options

  #83 opened 9 years ago by FredericBGA
  3

• [blastxml_to_tabular] Add an option to print Header of file

  #82 opened 9 years ago by FredericBGA
  2

• Linux only sed command in Blast2GO tool_dependencies.xml

  #81 opened 9 years ago by peterjc
  6

• Broken tool lineage on the Tool Shed.

  #76 opened 9 years ago by nsoranzo
  5

• Rename dependencies folder to packages ?

  #62 opened 9 years ago by peterjc
  2

• Annotation of 0 seqs with 0 annots finished

  #72 opened 9 years ago by agolicz
  2

• BLAST visualizations

  #60 opened 10 years ago by peterjc
  10

• NotFound: cannot find 'files_path' while searching for 'db_opts.histdb.files_path'

  #69 opened 10 years ago by peterjc
  7