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 dev/hive_master

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ndliberial

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Commits on Aug 1, 2021

• Merge pull request Ensembl#249 from Ensembl/feature/scallop_donors

  Show description for af40ce1
  ndliberial

  authored
  af40ce1

Commits on Jul 23, 2021

• remove lfs from command to search for file

  ndliberial

  committed
  4be1570

Commits on Jul 21, 2021

• added missing variable

  ndliberial

  committed
  1878999

Commits on Jul 19, 2021

• removed lfs command and added to keep *.stk files

  ndliberial

  committed
  4a512d5

• added feature to filter to run only dtol assemblies

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  committed
  2c233b9

Commits on Jun 1, 2021

• Skip missing uniprot files to avoid pipeline failure

  ndliberial

  committed
  bdadd91

Commits on May 24, 2021

• Adding extra checks to genebuild status during pipeline initialisation

  ndliberial

  committed
  a8edff7

Commits on May 22, 2021

• Updated sheets api open method with correct indentation

  ndliberial

  committed
  6d9b276

Commits on May 17, 2021

• Secondary species display name for RR processing

  ndliberial

  committed
  aac3bf7

Commits on May 14, 2021

• Removed unwanted lines and worked on indentation

  ndliberial

  committed
  b8393b9

Commits on May 12, 2021

• Merge branch 'dev/hive_master' into hotfix/update_sheet_and_registry_db_with_genebuild_status

  ndliberial

  authored
  26f4b10

• fixed undeclared variable

  ndliberial

  committed
  987de69

Commits on Apr 27, 2021

• Update to assembly registry and google sheets

  ndliberial

  committed
  fdb48df

Commits on Apr 23, 2021

• Update genebuild status in registry and google sheets

  ndliberial

  committed
  f37e799

• Raise warning if no sequence found for uniprot download pe12 or pe3

  ndliberial

  committed
  8892fab

• Enable registry database to update sheet with genebuilder info, progress of genebuild and assembly group info

  ndliberial

  committed
  fa1030c

Commits on Apr 10, 2021

• Merge pull request Ensembl#223 from Ensembl/hotfix/backup_core_db

  Show description for 210d98d
  ndliberial

  authored
  210d98d

• Added functionality to update google sheets with status and classification of assemblies

  ndliberial

  committed
  afe935c

Commits on Apr 7, 2021

• Merge pull request Ensembl#222 from Ensembl/hotfix/biotype_sample_length

  Show description for 8a71ac4
  ndliberial

  authored
  8a71ac4

Commits on Mar 30, 2021

• Update registry with status of annotation

  ndliberial

  committed
  40ba7e8

Commits on Feb 16, 2021

• Update uniprot version

  ndliberial

  committed
  488a547

Commits on Feb 12, 2021

• Allow for multiple pattern match for rnaseq dbs

  ndliberial

  committed
  20e8b77

• Update to pattern match for rnaseq db name

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  committed
  acc9cf4

Commits on Feb 10, 2021

• Updated script to include path function

  ndliberial

  committed
  501fa9c

Commits on Feb 9, 2021

• Removed unwanted lines in script

  ndliberial

  committed
  13f73f9

• Modified how rfam library is passed to both run_cmsearch and extract_rfam analysis

  ndliberial

  committed
  0498d0f

• Updated path run_cmsearch to point to correct filtered rfam.cm file

  ndliberial

  committed
  77fea5a

• Added check to update contig_N50 in sheets

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  committed
  861206e

Commits on Feb 4, 2021

• Set target db as url

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  committed
  36ee22a

Commits on Sep 4, 2020

• Update to main config to run long read module by default

  ndliberial

  committed
  7e48815

Commits on Aug 31, 2020

• Fixed indentation in google sheet update script

  ndliberial

  committed
  711e0e2

Commits on Aug 27, 2020

• Updated populate_analysis_description to use production_name as species. This allows both reference and breed/strains to identified in the production db

  ndliberial

  committed
  e81961d

Commits on Aug 7, 2020

• Update to ENA base url

  ndliberial

  committed
  ec1079d

Commits on Jul 26, 2020

• Updated google sheets to include column for the status of RNASeq data

  ndliberial

  committed
  c96b5fb

• Updated LastZ.pm to reflect the correct variable name for its registry in line with the main config

  ndliberial

  committed
  cf8be1c

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