Code

Features/fix mvp 114#967

Code

Open

vinay-ebi wants to merge 213 commits intorelease/mvpEnsembl/ensembl-production:release/mvpfrom features/fix_mvp_114Ensembl/ensembl-production:features/fix_mvp_114Copy head branch name to clipboard

+5,164-606

Commits

Commits on Jun 9, 2023

• Merge pull request #802 from Ensembl/fix/hive-deps-110

  Show description for 3778645
  marcoooo

  authored
  3778645

  Copy full SHA for 3778645

Commits on Jun 13, 2023

• Added a failure if gzip fails to complete properly (#804)

  Show description for b2b617f
  

  dpopleton

  and

  vinay-ebi

  authored
  b2b617f

  Copy full SHA for b2b617f

Commits on Jun 19, 2023

• Added Gzip check for array (#808)

  dpopleton

  authored
  5ea62af

  Copy full SHA for 5ea62af

Commits on Jul 18, 2023

• fix data_files path removig the vertebrates folder

  

  Paulo Lins

  committed
  ab54cdf

  Copy full SHA for ab54cdf

• Merge pull request #812 from pblins/release/110

  Show description for 9e80a93
  vinay-ebi

  authored
  9e80a93

  Copy full SHA for 9e80a93

• point symlink to the analysis_type folder and not to the release folder

  

  Paulo Lins

  committed
  fc8f643

  Copy full SHA for fc8f643

Commits on Jul 26, 2023

• Merge pull request #814 from pblins/release/110

  Show description for 4d007ad
  vinay-ebi

  authored
  4d007ad

  Copy full SHA for 4d007ad

Commits on Sep 13, 2023

• Merge branch 'main' of github.com:Ensembl/ensembl-production

  marcoooo

  committed
  b4ffc18

  Copy full SHA for b4ffc18

Commits on Sep 24, 2023

• Merge branch 'main' of github.com:Ensembl/ensembl-production into release/111

  Show description for a1ef53d
  marcoooo

  committed
  a1ef53d

  Copy full SHA for a1ef53d

Commits on Sep 25, 2023

• Merge pull request #825 from Ensembl/release/merge-111

  Show description for 7d11118
  marcoooo

  authored
  7d11118

  Copy full SHA for 7d11118

• Updating test dbs to latest schema

  marcoooo

  committed
  ac36066

  Copy full SHA for ac36066

• Merge pull request #826 from Ensembl/feature/test_db_patch_112

  Show description for 5a31c85
  marcoooo

  authored
  5a31c85

  Copy full SHA for 5a31c85

Commits on Oct 2, 2023

• Add gencode primary tag to GFF3 files

  

  Tamara El Naboulsi

  committed
  aea0b73

  Copy full SHA for aea0b73

• Updated download URL for miRBase miRNA.dat file

  jmgonzmart

  committed
  881d271

  Copy full SHA for 881d271

Commits on Oct 4, 2023

• Merge pull request #827 from TamaraNaboulsi/new/gencode_primary

  Show description for 50e7bc4
  marcoooo

  authored
  50e7bc4

  Copy full SHA for 50e7bc4

• Merge pull request #829 from jmgonzmart/main

  Show description for 9a5508a
  marcoooo

  authored
  9a5508a

  Copy full SHA for 9a5508a

Commits on Oct 6, 2023

• Merge pull request #828 from jmgonzmart/main

  Show description for 45f88d3
  marcoooo

  authored
  45f88d3

  Copy full SHA for 45f88d3

Commits on Oct 16, 2023

• Updated .gitignore + patch DQ forgotten when initially branching

  marcoooo

  committed
  a3f251c

  Copy full SHA for a3f251c

• Merge remote-tracking branch 'origin/main'

  marcoooo

  committed
  e7ca268

  Copy full SHA for e7ca268

• Merge pull request #830 from Ensembl/release-112/patch-sql

  Show description for aab833e
  marcoooo

  authored
  aab833e

  Copy full SHA for aab833e

• Merge remote-tracking branch 'origin/release/110' into bugfixes/merge-fixes-110

  Show description for 19a9198
  marcoooo

  committed
  19a9198

  Copy full SHA for 19a9198

• Merge pull request #833 from Ensembl/bugfixes/merge-fixes-110

  Show description for b0bd310
  marcoooo

  authored
  b0bd310

  Copy full SHA for b0bd310

Commits on Oct 19, 2023

• Stop skipping lines when reaching sequence data (#837)

  Show description for 3318e16
  

  TamaraNaboulsi

  and

  Tamara El Naboulsi

  authored
  3318e16

  Copy full SHA for 3318e16

Commits on Oct 31, 2023

• Updated Core stats resources.

  dpopleton

  committed
  cb28396

  Copy full SHA for cb28396

• Merge pull request #839 from Ensembl/update/112_slurm

  Show description for 5ebab63
  dpopleton

  authored
  5ebab63

  Copy full SHA for 5ebab63

Commits on Nov 6, 2023

• Fixed open/close TSV file while writing to it

  sgiorgetti

  committed
  97e0fb3

  Copy full SHA for 97e0fb3

• Fixed typo

  sgiorgetti

  committed
  47b7e3d

  Copy full SHA for 47b7e3d

• Merge pull request #840 from Ensembl/hotfix/Xref_TSV-dump

  Show description for 3236a1f
  marcoooo

  authored
  3236a1f

  Copy full SHA for 3236a1f

Commits on Nov 7, 2023

• Merge pull request #841 from Ensembl/main

  Show description for 94b4ca7
  marcoooo

  authored
  94b4ca7

  Copy full SHA for 94b4ca7

Commits on Nov 8, 2023

• Added table cleanup. Added SLURM resource specs. Removed 4GB_8CPU's as we actually requested 9.

  Show description for 2de0888
  dpopleton

  committed
  2de0888

  Copy full SHA for 2de0888

Commits on Nov 13, 2023

• Fix for "scalar on reference"

  Show description for b0df7a2
  EbiArnie

  committed
  b0df7a2

  Copy full SHA for b0df7a2

Commits on Nov 15, 2023

• Moved to KyotoCabinet as DB

  Show description for 0e1c0fe
  EbiArnie

  committed
  0e1c0fe

  Copy full SHA for 0e1c0fe

• Added KyotoCabinet dependency

  Show description for 7b25f08
  EbiArnie

  committed
  7b25f08

  Copy full SHA for 7b25f08

• Merge pull request #845 from EbiArnie/main

  Show description for a3dd857
  marcoooo

  authored
  a3dd857

  Copy full SHA for a3dd857

Commits on Nov 17, 2023

• update port for blat files

  Show description for 4393c3c
  vinay-ebi

  authored
  4393c3c

  Copy full SHA for 4393c3c

Commits on Nov 18, 2023

• Merge pull request #851 from Ensembl/hotfix/blat_port

  Show description for 5d456ac
  vinay-ebi

  authored
  5d456ac

  Copy full SHA for 5d456ac

Commits on Nov 21, 2023

• Merge pull request #844 from Ensembl/update/112_slurm

  Show description for f2e0f7d
  dpopleton

  authored
  f2e0f7d

  Copy full SHA for f2e0f7d

• Better AlphaFold mapping, Travis

  Show description for 6773a1f
  EbiArnie

  committed
  6773a1f

  Copy full SHA for 6773a1f

• Fix Travis cpanm

  Show description for 8c0eb84
  EbiArnie

  committed
  8c0eb84

  Copy full SHA for 8c0eb84

Commits on Nov 22, 2023

• Merge pull request #846 from EbiArnie/feature/alphafold_kyotodb

  Show description for b4a1481
  marcoooo

  authored
  b4a1481

  Copy full SHA for b4a1481

• Merge pull request #847 from Ensembl/main

  Show description for 53d3045
  marcoooo

  authored
  53d3045

  Copy full SHA for 53d3045

• Merge branch 'release/112' into update/112_slurm

  dpopleton

  committed
  d2f2123

  Copy full SHA for d2f2123

• Added additional resource classes: 50GB, 100GB, 200GB

  dpopleton

  committed
  9352e9c

  Copy full SHA for 9352e9c

• Altered resource classes for XrefDownload_conf.pm

  dpopleton

  committed
  2c32ef0

  Copy full SHA for 2c32ef0

Commits on Nov 23, 2023

• Added memory step increase

  dpopleton

  committed
  803fb76

  Copy full SHA for 803fb76

• Integrate GIFTS

  Show description for d01b2f3
  EbiArnie

  committed
  d01b2f3

  Copy full SHA for d01b2f3

• Merge pull request #854 from Ensembl/update/112_slurm

  Show description for a7f556d
  dpopleton

  authored
  a7f556d

  Copy full SHA for a7f556d

Commits on Nov 24, 2023

• removed analysis step copytopublicftp

  vinay-ebi

  committed
  5986520

  Copy full SHA for 5986520

Commits on Nov 26, 2023

• Merge pull request #856 from Ensembl/bugfix/earlydumps

  Show description for 0e664ba
  vinay-ebi

  authored
  0e664ba

  Copy full SHA for 0e664ba

Commits on Nov 27, 2023

• Merge pull request #855 from EbiArnie/feature/integrate_gifts

  Show description for 07f00f1
  marcoooo

  authored
  07f00f1

  Copy full SHA for 07f00f1

• Merge pull request #857 from Ensembl/main

  Show description for b397e55
  dpopleton

  authored
  b397e55

  Copy full SHA for b397e55

Commits on Nov 28, 2023

• update DumpOrtholog_eg_conf.pm

  Show description for bfbec1e
  JAlvarezJarreta

  authored
  bfbec1e

  Copy full SHA for bfbec1e

• Merge pull request #858 from JAlvarezJarreta/patch-1

  Show description for fd52bf1
  marcoooo

  authored
  fd52bf1

  Copy full SHA for fd52bf1

Commits on Nov 29, 2023

• Fixes for pipe config and cleanup

  Show description for 2ec70d8
  EbiArnie

  committed
  2ec70d8

  Copy full SHA for 2ec70d8

Commits on Dec 1, 2023

• Merge pull request #859 from EbiArnie/feature/integrate_gifts

  Show description for 2db8a49
  dpopleton

  authored
  2db8a49

  Copy full SHA for 2db8a49

• Merge pull request #860 from Ensembl/main

  Show description for 72d1903
  dpopleton

  authored
  72d1903

  Copy full SHA for 72d1903

Commits on Dec 15, 2023

• Update regulation_ftp_symlinks.py

  marcoooo

  authored
  ae3aa21

  Copy full SHA for ae3aa21

Commits on Dec 18, 2023

• fix signals symlink in rf dir

  pblins

  committed
  a896738

  Copy full SHA for a896738

• fix delete option

  pblins

  committed
  0190c65

  Copy full SHA for 0190c65

• Merge pull request #863 from Ensembl/bugfixes/typo-log-regul-symlink

  Show description for 128ac03
  marcoooo

  authored
  128ac03

  Copy full SHA for 128ac03

• Merge pull request #864 from pblins/bugfixes/signal-in-rf-dir

  Show description for d6d4572
  marcoooo

  authored
  d6d4572

  Copy full SHA for d6d4572

Commits on Jan 24, 2024

• Altered resource classes for XrefDownload_conf.pm

  dpopleton

  committed
  c84c5c7

  Copy full SHA for c84c5c7

• Altered resource classes for Xref

  dpopleton

  committed
  87454c7

  Copy full SHA for 87454c7

• updated copyright

  dpopleton

  committed
  f0b3925

  Copy full SHA for f0b3925

• Merge pull request #865 from Ensembl/update/112_slurm

  Show description for e5d196a
  dpopleton

  authored
  e5d196a

  Copy full SHA for e5d196a

Commits on Jan 25, 2024

• Fixed array bug

  dpopleton

  committed
  be5f319

  Copy full SHA for be5f319

• Fixed typo

  dpopleton

  committed
  73e7801

  Copy full SHA for 73e7801

Commits on Jan 30, 2024

• Update update_copyrights.sh

  marcoooo

  authored
  b012cb5

  Copy full SHA for b012cb5

• 2024 copyright update

  marcoooo

  committed
  fe59fe5

  Copy full SHA for fe59fe5

• Merge pull request #869 from Ensembl/bau/copyright-2024

  Show description for 4422b56
  vinay-ebi

  authored
  4422b56

  Copy full SHA for 4422b56

• Add check for unvalid readdir output

  

  Tamara El Naboulsi

  committed
  c8606fa

  Copy full SHA for c8606fa

Commits on Feb 1, 2024

• Rework alphafold pipeline cleanup logic

  Show description for 6a8c1c4
  EbiArnie

  committed
  6a8c1c4

  Copy full SHA for 6a8c1c4

• Merge pull request #871 from EbiArnie/feature/integrate_gifts

  Show description for 46ced20
  dpopleton

  authored
  46ced20

  Copy full SHA for 46ced20

Commits on Feb 5, 2024

• Merge pull request #870 from TamaraNaboulsi/fix_xref/perl_readdir

  Show description for 78acaca
  marcoooo

  authored
  78acaca

  Copy full SHA for 78acaca

Commits on Feb 6, 2024

• Fix uniprot gene name + cleanup bugs

  

  Tamara El Naboulsi

  committed
  19a9c31

  Copy full SHA for 19a9c31

• Merge pull request #875 from TamaraNaboulsi/xref_fix/uniprot_bugs

  Show description for 4e8e235
  marcoooo

  authored
  4e8e235

  Copy full SHA for 4e8e235

Commits on Feb 7, 2024

• Merge pull request #867 from Ensembl/bugfix/base_conf

  Show description for 38e1efe
  marcoooo

  authored
  38e1efe

  Copy full SHA for 38e1efe

Commits on Feb 15, 2024

• Flag outdated taxon_ids in TaxonomyInfoCore pipeline

  twalsh-ebi

  committed
  79b1f2e

  Copy full SHA for 79b1f2e

Commits on Feb 21, 2024

• Merge pull request #876 from twalsh-ebi/feature/flag_outdated_taxon_ids

  Show description for 2f50996
  marcoooo

  authored
  2f50996

  Copy full SHA for 2f50996

Commits on Feb 26, 2024

• Load InterPro Family data only for canonicals

  twalsh-ebi

  committed
  610d7a9

  Copy full SHA for 610d7a9

Commits on Mar 4, 2024

• Merge pull request #878 from twalsh-ebi/feature/canonical_only_members

  Show description for c0bbe2b
  marcoooo

  authored
  c0bbe2b

  Copy full SHA for c0bbe2b

Commits on Mar 15, 2024

• Update ProteinFeatures_conf.pm

  Show description for a2596d4
  dpopleton

  authored
  a2596d4

  Copy full SHA for a2596d4

Commits on Mar 16, 2024

• Reduced field lengths and optimised index on stable_id_lookup

  sgiorgetti

  committed
  d376dea

  Copy full SHA for d376dea

Commits on Mar 18, 2024

• Fixed dependencies conflict in requirements.in

  marcoooo

  committed
  009cb6d

  Copy full SHA for 009cb6d

• Merge pull request #888 from Ensembl/update/Protein_features_comment

  Show description for 35ff742
  marcoooo

  authored
  35ff742

  Copy full SHA for 35ff742

• Merge pull request #889 from Ensembl/fix112/stable_ids_db

  Show description for 5b4122b
  marcoooo

  authored
  5b4122b

  Copy full SHA for 5b4122b

• Merge pull request #890 from Ensembl/buxfixes/112-dependencies

  Show description for 30f409f
  marcoooo

  authored
  30f409f

  Copy full SHA for 30f409f

Commits on Mar 28, 2024

• New xref download pipeline using python and nextflow

  

  Tamara El Naboulsi

  committed
  c617b54

  Copy full SHA for c617b54

• Add recent changes (112)

  

  Tamara El Naboulsi

  committed
  93dfccd

  Copy full SHA for 93dfccd

Commits on Apr 3, 2024

• Added handling of new Transcript attribute 'gencode_primary'

  sgiorgetti

  committed
  d13bd11

  Copy full SHA for d13bd11

Commits on Apr 4, 2024

• Merge pull request #908 from Ensembl/feature/gencode_primary

  Show description for 20f4e5a
  marcoooo

  authored
  20f4e5a

  Copy full SHA for 20f4e5a

Commits on Apr 22, 2024

• Using core model from ensembl-py

  

  Tamara El Naboulsi

  committed
  6765b85

  Copy full SHA for 6765b85

• Patched gencode_primary tag for harmonisation purposes

  sgiorgetti

  committed
  68347b0

  Copy full SHA for 68347b0

• Fixed gencode_primary string

  sgiorgetti

  committed
  e1d6f8b

  Copy full SHA for e1d6f8b

Commits on Apr 23, 2024

• Moving all db models to ensembl-py

  

  Tamara El Naboulsi

  committed
  bccac73

  Copy full SHA for bccac73

• Adding tags to download and cleanup jobs

  

  Tamara El Naboulsi

  committed
  5fa2a0f

  Copy full SHA for 5fa2a0f

• Merge pull request #915 from Ensembl/fix/gencode_primary_tag

  Show description for 6c9ec7a
  dpopleton

  authored
  6c9ec7a

  Copy full SHA for 6c9ec7a

• Merge pull request #914 from Ensembl/fix112/gencode_primary_tag

  Show description for ae58398
  dpopleton

  authored
  ae58398

  Copy full SHA for ae58398

• Merge pull request #905 from TamaraNaboulsi/xref/new_python_pipeline

  Show description for 80296b0
  dpopleton

  authored
  80296b0

  Copy full SHA for 80296b0

• Merge pull request #907 from Ensembl/release/112

  Show description for 11d6bb3
  dpopleton

  authored
  11d6bb3

  Copy full SHA for 11d6bb3

• Updated patches for preperation of 113

  dpopleton

  committed
  792c5f3

  Copy full SHA for 792c5f3

• Merge pull request #916 from Ensembl/update/patches

  Show description for 3907412
  dpopleton

  authored
  3907412

  Copy full SHA for 3907412

• Updating test dbs to latest schema

  

  Daniel Poppleton

  committed
  127ad09

  Copy full SHA for 127ad09

• Merge pull request #917 from Ensembl/feature/test_db_patch_113

  Show description for 17d5c1a
  dpopleton

  authored
  17d5c1a

  Copy full SHA for 17d5c1a

Commits on Apr 26, 2024

• Changed GENCODE Basic tag to 'gencode_basic' as per ENSINT-1885

  sgiorgetti

  committed
  d924e50

  Copy full SHA for d924e50

• Changed GENCODE Basic tag to 'gencode_basic' as per ENSINT-1885

  sgiorgetti

  committed
  f09b9b7

  Copy full SHA for f09b9b7

Commits on Apr 29, 2024

• Minor fixes

  

  Tamara El Naboulsi

  committed
  a0b629a

  Copy full SHA for a0b629a

• Missing semicolon

  

  Tamara El Naboulsi

  committed
  ec58c92

  Copy full SHA for ec58c92

• Change glob parameters

  

  Tamara El Naboulsi

  committed
  6b97c44

  Copy full SHA for 6b97c44

• Remove debugging

  

  Tamara El Naboulsi

  committed
  5d99a70

  Copy full SHA for 5d99a70

• Fixes to prevent warnings

  

  Tamara El Naboulsi

  committed
  577c6ba

  Copy full SHA for 577c6ba

Commits on Apr 30, 2024

• Fix file paths

  

  Tamara El Naboulsi

  committed
  a29d373

  Copy full SHA for a29d373

Commits on May 2, 2024

• Keep original files if no species file

  

  Tamara El Naboulsi

  committed
  7fb4c04

  Copy full SHA for 7fb4c04

• Merge pull request #919 from Ensembl/fix/gencode_basic

  Show description for e72a12d
  dpopleton

  authored
  e72a12d

  Copy full SHA for e72a12d

• Merge pull request #920 from TamaraNaboulsi/xref/new_python_pipeline

  Show description for c05a7d4
  dpopleton

  authored
  c05a7d4

  Copy full SHA for c05a7d4

Commits on May 10, 2024

• Updated HGNC custom download URL

  jmgonzmart

  committed
  74296b6

  Copy full SHA for 74296b6

• Merge pull request #923 from jmgonzmart/release/113

  Show description for 66f0ff4
  vinay-ebi

  authored
  66f0ff4

  Copy full SHA for 66f0ff4

Commits on May 14, 2024

• remove partition from slurm command

  Show description for ca259d0
  MatBarba

  committed
  ca259d0

  Copy full SHA for ca259d0

Commits on May 15, 2024

• moved ensembl/xrefs to ensembl/production/xrefs

  vinay-ebi

  committed
  0c7c41f

  Copy full SHA for 0c7c41f

• Update xref.config

  Show description for 0393357
  vinay-ebi

  authored
  0393357

  Copy full SHA for 0393357

Commits on May 16, 2024

• base load changed to ensembl.production.xrefs

  vinay-ebi

  committed
  4391762

  Copy full SHA for 4391762

• Merge pull request #925 from Ensembl/feature/nf_xref

  Show description for fde8b7b
  vinay-ebi

  authored
  fde8b7b

  Copy full SHA for fde8b7b

• Update requirements.txt

  JAlvarezJarreta

  authored
  6f63ae1

  Copy full SHA for 6f63ae1

Commits on May 20, 2024

• Updated default resources from 100mb to 1gb

  dpopleton

  committed
  15b4ead

  Copy full SHA for 15b4ead

• Merge pull request #928 from Ensembl/update/increase_rc

  Show description for d9ac953
  dpopleton

  authored
  d9ac953

  Copy full SHA for d9ac953

• Merge pull request #921 from Ensembl/main

  Show description for 2c33d61
  vinay-ebi

  authored
  2c33d61

  Copy full SHA for 2c33d61

• Merge pull request #926 from JAlvarezJarreta/patch-2

  Show description for 7859b31
  vinay-ebi

  authored
  7859b31

  Copy full SHA for 7859b31

Commits on May 23, 2024

• Updated JSON remodeler to stop Experimental push on scalar is now forbidden with new perl version

  dpopleton

  committed
  2021302

  Copy full SHA for 2021302

Commits on May 24, 2024

• Merge pull request #924 from MatBarba/mbarba/slurm_partition

  Show description for 2e0063c
  dpopleton

  authored
  2e0063c

  Copy full SHA for 2e0063c

• Merge branch 'release/113' into merge_conflicts

  vinay-ebi

  authored
  d1f6dbf

  Copy full SHA for d1f6dbf

• Merge pull request #930 from Ensembl/merge_conflicts

  Show description for cdce7ed
  dpopleton

  authored
  cdce7ed

  Copy full SHA for cdce7ed

• Update xref_all_sources.json for RGD

  vinay-ebi

  authored
  3290f21

  Copy full SHA for 3290f21

• Merge pull request #931 from Ensembl/xref_resource_update

  Show description for 808b346
  vinay-ebi

  authored
  808b346

  Copy full SHA for 808b346

Commits on May 28, 2024

• Update tag names and info relating to gencode genesets

  nwillhoft

  committed
  975fa4a

  Copy full SHA for 975fa4a

Commits on May 29, 2024

• Bugfix for files not being overwritten

  

  Tamara El Naboulsi

  committed
  95c1320

  Copy full SHA for 95c1320

• Merge pull request #929 from Ensembl/update/file_dump_perl_compatibility

  Show description for ba155dc
  dpopleton

  authored
  ba155dc

  Copy full SHA for ba155dc

• Merge pull request #933 from TamaraNaboulsi/xref/bugfix

  Show description for 1c15ef9
  vinay-ebi

  authored
  1c15ef9

  Copy full SHA for 1c15ef9

Commits on Jun 4, 2024

• Fix for when no species file is found

  

  Tamara El Naboulsi

  committed
  3ad6a02

  Copy full SHA for 3ad6a02

• Merge pull request #934 from TamaraNaboulsi/xref/bugfix

  Show description for 700c96f
  vinay-ebi

  authored
  700c96f

  Copy full SHA for 700c96f

• Update ProteinFeatures analysis

  Show description for 9586a89
  vinay-ebi

  authored
  9586a89

  Copy full SHA for 9586a89

• Update ProteinFeatures_conf.pm

  vinay-ebi

  authored
  f065884

  Copy full SHA for f065884

Commits on Jun 5, 2024

• Merge pull request #935 from Ensembl/bugifx/proteinfeatures

  Show description for 2b7fded
  vinay-ebi

  authored
  2b7fded

  Copy full SHA for 2b7fded

Commits on Jun 19, 2024

• Update xref_sources.json

  Show description for d283cf0
  vinay-ebi

  authored
  d283cf0

  Copy full SHA for d283cf0

• Update xref_all_sources.json

  Show description for d74f87e
  vinay-ebi

  authored
  d74f87e

  Copy full SHA for d74f87e

• Merge pull request #938 from Ensembl/bugfix/update_xenbase

  Show description for 4c8fcf0
  vinay-ebi

  authored
  4c8fcf0

  Copy full SHA for 4c8fcf0

Commits on Jun 20, 2024

• Fixed as per ENSPROD-9493

  sgiorgetti

  committed
  b2da23c

  Copy full SHA for b2da23c

Commits on Jun 21, 2024

• Merge pull request #939 from Ensembl/fix113/alphafold-displaylabel

  Show description for 7463aca
  vinay-ebi

  authored
  7463aca

  Copy full SHA for 7463aca

Commits on Jun 24, 2024

• Fix use of keys on a scalar

  Show description for 7e4aca5
  jgtate

  authored
  7e4aca5

  Copy full SHA for 7e4aca5

Commits on Jun 26, 2024

• Fixes for 113 issues

  

  Tamara El Naboulsi

  committed
  a3ff2b4

  Copy full SHA for a3ff2b4

Commits on Jun 27, 2024

• Merge pull request #941 from TamaraNaboulsi/xref/fixes

  Show description for 39c3a57
  dpopleton

  authored
  39c3a57

  Copy full SHA for 39c3a57

Commits on Jul 1, 2024

• Merge pull request #940 from Ensembl/fix-keys-on-scalar

  Show description for 6549a72
  jgtate

  authored
  6549a72

  Copy full SHA for 6549a72

Commits on Jul 5, 2024

• Update SourceFactory.pm

  Show description for ee5da99
  vinay-ebi

  authored
  ee5da99

  Copy full SHA for ee5da99

• Merge pull request #942 from Ensembl/bug/experimenta_scalar

  Show description for 2976823
  vinay-ebi

  authored
  2976823

  Copy full SHA for 2976823

Commits on Jul 19, 2024

• Updated Base class with slurm default resource 1GB

  vinay-ebi

  authored
  d1ce293

  Copy full SHA for d1ce293

• Update Typo GB

  vinay-ebi

  authored
  772caf1

  Copy full SHA for 772caf1

Commits on Jul 22, 2024

• Merge pull request #918 from Ensembl/fix113/gencode_basic

  Show description for ce884ca
  vinay-ebi

  authored
  ce884ca

  Copy full SHA for ce884ca

• Merge pull request #932 from nwillhoft/fix113/update_tag_info

  Show description for 14500c9
  vinay-ebi

  authored
  14500c9

  Copy full SHA for 14500c9

• decompress upidump.lis.gz file before load to hive db

  vinay-ebi

  committed
  2b01517

  Copy full SHA for 2b01517

• delete the upidump file after loading into hive db

  vinay-ebi

  committed
  434e865

  Copy full SHA for 434e865

• Update modules/Bio/EnsEMBL/Production/Pipeline/ProteinFeatures/LoadUniParc.pm

  Show description for 693c899
  

  vinay-ebi

  and

  jgtate

  authored
  693c899

  Copy full SHA for 693c899

• Update modules/Bio/EnsEMBL/Production/Pipeline/ProteinFeatures/LoadUniParc.pm

  Show description for 51cc0c3
  

  vinay-ebi

  and

  jgtate

  authored
  51cc0c3

  Copy full SHA for 51cc0c3

• Merge pull request #943 from Ensembl/feature/slurm_resource

  Show description for 7cbce1e
  vinay-ebi

  authored
  7cbce1e

  Copy full SHA for 7cbce1e

Commits on Jul 23, 2024

• Merge pull request #946 from Ensembl/bugfix/pf_uniparc_gunzip

  Show description for 515063a
  vinay-ebi

  authored
  515063a

  Copy full SHA for 515063a

Commits on Jul 25, 2024

• Include human and mouse symlinks

  pblins

  committed
  0eae3f6

  Copy full SHA for 0eae3f6

• include Mouse and Human symlinks

  

  Paulo Lins

  committed
  3542ca1

  Copy full SHA for 3542ca1

• include Mouse and Human symlinks

  

  Paulo Lins

  committed
  ac6c741

  Copy full SHA for ac6c741

• Merge pull request #947 from pblins/include-human-and-mouse

  Show description for 8380bd1
  vinay-ebi

  authored
  8380bd1

  Copy full SHA for 8380bd1

Commits on Aug 13, 2024

• Update ProteinFeatures_conf.pm

  Show description for bbc1362
  vinay-ebi

  authored
  bbc1362

  Copy full SHA for bbc1362

• Merge pull request #949 from Ensembl/bugfix/pf_analysis_lc

  Show description for d26c79e
  vinay-ebi

  authored
  d26c79e

  Copy full SHA for d26c79e

Commits on Sep 3, 2024

• Merge pull request #951 from Ensembl/release/113

  Show description for 3045fbb
  vinay-ebi

  authored
  3045fbb

  Copy full SHA for 3045fbb

Commits on Sep 9, 2024

• Changes for xref for release 114

  

  Tamara El Naboulsi

  committed
  897ec8e

  Copy full SHA for 897ec8e

Commits on Sep 10, 2024

• Update XrefProcess_conf.pm

  Show description for be04bb1
  TamaraNaboulsi

  authored
  be04bb1

  Copy full SHA for be04bb1

• patch 114

  vinay-ebi

  authored
  5f1bd53

  Copy full SHA for 5f1bd53

• Updating test dbs to latest schema

  

  Ensprod User

  committed
  e715bf6

  Copy full SHA for e715bf6

• Merge pull request #956 from Ensembl/fix_patch_updates_114

  Show description for ec8ca60
  vinay-ebi

  authored
  ec8ca60

  Copy full SHA for ec8ca60

• Merge pull request #957 from Ensembl/feature/test_db_patch_114

  Show description for 4a1d025
  vinay-ebi

  authored
  4a1d025

  Copy full SHA for 4a1d025

Commits on Sep 20, 2024

• Update python version to 3.10

  vinay-ebi

  committed
  9c5e81a

  Copy full SHA for 9c5e81a

Commits on Sep 22, 2024

• Fix Specified key was too long; max key length is 1000 bytes

  Show description for 6f1c54c
  vinay-ebi

  committed
  6f1c54c

  Copy full SHA for 6f1c54c

• Fix Specified key was too long; max key length is 1000 bytes

  Show description for 8fe57dc
  vinay-ebi

  committed
  8fe57dc

  Copy full SHA for 8fe57dc

• Fix Specified key was too long; max key length is 1000 bytes

  Show description for 963b1f1
  vinay-ebi

  committed
  963b1f1

  Copy full SHA for 963b1f1

• set travis dist to bionic to revert mysql version to 5.7 similar to production staging server

  vinay-ebi

  committed
  153c7d6

  Copy full SHA for 153c7d6

• set travis dist to default to revert mysql version to 5.7 similar to production staging server

  vinay-ebi

  committed
  8cd9826

  Copy full SHA for 8cd9826

Commits on Sep 24, 2024

• Merge pull request #954 from TamaraNaboulsi/xref/changes

  Show description for a108cfc
  vinay-ebi

  authored
  a108cfc

  Copy full SHA for a108cfc

• Fixed analysis name

  jmgonzmart

  committed
  928c0de

  Copy full SHA for 928c0de

• Added new resource class as it was required by the XrefDownload pipeline

  jmgonzmart

  committed
  6725416

  Copy full SHA for 6725416

• Updated file name in the URL for the UniParc data download

  jmgonzmart

  committed
  7f0a5f1

  Copy full SHA for 7f0a5f1

Commits on Sep 25, 2024

• Merge pull request #959 from Ensembl/feature/py3_10

  Show description for f6154b6
  vinay-ebi

  authored
  f6154b6

  Copy full SHA for f6154b6

• Merge pull request #960 from jmgonzmart/release/114

  Show description for 681fc92
  vinay-ebi

  authored
  681fc92

  Copy full SHA for 681fc92

Commits on Oct 14, 2024

• fix delete group param in dbcopy pipeline

  vinay-ebi

  authored
  1fd5982

  Copy full SHA for 1fd5982

• remove exiting param delete group assigned to group

  vinay-ebi

  authored
  e7955f9

  Copy full SHA for e7955f9

Commits on Oct 15, 2024

• Merge pull request #965 from Ensembl/bugfix/dbcopy_delete_group

  Show description for c5981b5
  vinay-ebi

  authored
  c5981b5

  Copy full SHA for c5981b5

• Merge branch 'refs/heads/release/mvp' into features/fix_mvp_114

  Show description for a9e758f
  vinay-ebi

  committed
  a9e758f

  Copy full SHA for a9e758f

• fix travis failures

  vinay-ebi

  committed
  62fc1cb

  Copy full SHA for 62fc1cb

• update travis to run bot the perl and python tests

  vinay-ebi

  committed
  80ff508

  Copy full SHA for 80ff508

• fix missing mysql service in python jobs for travis

  vinay-ebi

  committed
  a4797ab

  Copy full SHA for a4797ab

• fix missing mysql service in python jobs for travis

  vinay-ebi

  committed
  59cd63e

  Copy full SHA for 59cd63e

• fix missing mysql service in python jobs for travis

  vinay-ebi

  committed
  5372422

  Copy full SHA for 5372422

• fix missing mysql service in python jobs for travis

  vinay-ebi

  committed
  7fe4248

  Copy full SHA for 7fe4248

• Merge remote-tracking branch 'origin/features/fix_mvp_114' into features/fix_mvp_114

  Show description for 088ed3f
  vinay-ebi

  committed
  088ed3f

  Copy full SHA for 088ed3f

• fix missing mysql service in python jobs for travis

  vinay-ebi

  committed
  ac5e7ab

  Copy full SHA for ac5e7ab

Commits on Oct 16, 2024

• fix missing mysql service in python jobs for travis

  vinay-ebi

  committed
  a444f32

  Copy full SHA for a444f32

• set perl version to 5.26.2

  vinay-ebi

  committed
  3d4a9df

  Copy full SHA for 3d4a9df

• revert the travis yml file and remove the perl version 5.14

  vinay-ebi

  committed
  f253f28

  Copy full SHA for f253f28

• check perl test are running

  vinay-ebi

  committed
  c69590e

  Copy full SHA for c69590e

• Revert "fix missing mysql service in python jobs for travis"

  Show description for a61bfe6
  vinay-ebi

  committed
  a61bfe6

  Copy full SHA for a61bfe6

• check perl test are running

  vinay-ebi

  committed
  5781de6

  Copy full SHA for 5781de6

• update hive version to 2.7 in core stats pipeline

  vinay-ebi

  committed
  b82e08a

  Copy full SHA for b82e08a

Commits on Oct 17, 2024

• update hive version to 2.7 in production pipeline

  vinay-ebi

  committed
  68cc8f1

  Copy full SHA for 68cc8f1

Commits on Oct 22, 2024

• update metadata-api to latest version

  vinay-ebi

  committed
  c42b788

  Copy full SHA for c42b788

• update metadata-api to latest version 3.3.0a1

  vinay-ebi

  committed
  efa637c

  Copy full SHA for efa637c

Commits on Nov 5, 2024

• update MetadataUpdaterHiveCore to insert job details into result table

  vinay-ebi

  authored
  86da542

  Copy full SHA for 86da542

• test job_id

  vinay-ebi

  authored
  fb31eff

  Copy full SHA for fb31eff

Commits on Nov 6, 2024

• set job id in output flow

  vinay-ebi

  authored
  6e4dfe7

  Copy full SHA for 6e4dfe7