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Feature/mvp rebase main #571

Merged
merged 94 commits into from
Feb 8, 2024
Merged

Feature/mvp rebase main #571

merged 94 commits into from
Feb 8, 2024

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marcoooo
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@marcoooo marcoooo commented Feb 6, 2024 •
edited

Rebase from main for consistency with current branch. Please advise if you are aware of some incompatibilities I don't know about.

ens-ftricomi and others added 30 commits May 19, 2022 17:10
@ens-ftricomi
changed anno condition
50e39e4
@marcoooo
Merge pull request #480 from Ensembl/fix/genebuild_anno_metakey1
2839d83 
changed anno condition
@leannehaggerty
add skip repeat features for projection builds, e.g. human haplotypes
46c3513
@leannehaggerty
fix
cbe94d6
@marcoooo
Merge pull request #496 from Ensembl/update/skip_human_repeats
d0a30b7 
add skip repeat features for projection builds, e.g. human haplotypes
@leannehaggerty
For projection builds: Allow up to 100 gene with without a transcript…
4fa480c 
… that has a matching biotype
@leannehaggerty
updated message to be more meaningful
5206221
@marcoooo
Merge pull request #497 from Ensembl/update/allow_genebiotypes_human
af2aa89 
For projection builds: Allow up to 100 gene with without a transcript that has a matching biotype
@marcoooo
Merge branch 'release/108' into release/107
cb416bb
@ens-ftricomi
skip human polymorphic pseudogene if count less than 5
e6ccea7
@ens-ftricomi
bug fix
db1c42e
@marcoooo
Merge pull request #500 from Ensembl/skip_human_polymorphic_pseudogenes
facfc83 
skip human polymorphic pseudogene if count less than 5
@leannehaggerty
fixes for GeneBiotypes DC
6058003
@marcoooo
Merge pull request #501 from Ensembl/update/gene_biotypes_fix
6be0118 
fixes for GeneBiotypes DC
@ens-ftricomi
fixed canonical transcripts for human
07b2cfa
@marcoooo
Merge pull request #502 from Ensembl/canonical_transcript_fix_projection
afc3e55 
fixed canonical transcripts for human
@marcoooo
Merge pull request #498 from Ensembl/release/107
e4ef765 
Merged RR updates to 108
@vsitnik
Adding annotation source tag to the display name
ed3c9aa 
Allowing appending "[tags]" to the display name
See related #508.
@marcoooo
Merge pull request #510 from Ensembl/vsitnik-display_name_pat_108
db49269 
Adding annotation source tag to the display name
@marcoooo
2023 copyright update
5a2abf9
@marcoooo
Merge pull request #520 from Ensembl/bau/copyright-2023
942ff20 
Annual copyright update 2023
@twalsh-ebi
Generalise CheckComparaStableIDs prefix subtest
beb8331
@marcoooo
Merge pull request #523 from twalsh-ebi/main
d9b3c05 
Generalise CheckComparaStableIDs prefix subtest
@leannehaggerty
new DC to check ensembl dbs for gene_symbol_classifier analysis
667f77c
@leannehaggerty
Revert "new DC to check ensembl dbs for gene_symbol_classifier analysis"
9837525 
This reverts commit 667f77c.
@leannehaggerty
new DC to check ensembl dbs for gene_symbol_classifier analysis
b2a2e28
@leannehaggerty
new DC to check ensembl dbs for gene_symbol_classifier analysis
3ea51bf
@leannehaggerty
update copyright date
80f1377
@leannehaggerty
fixed index.json
3649515
@leannehaggerty
fix descriptions
188b5a2
twalsh-ebi and others added 22 commits August 31, 2023 21:39
@twalsh-ebi
Add datacheck CactusMetadataConsistency
fa88dff
@twalsh-ebi
Put CactusMetadataConsistency in its place
fe85a2a
@vinay-ebi
fix for es column index limit 1000
5c04906
@vinay-ebi
change es host url
7169522
@vinay-ebi
Merge pull request #559 from Simarpreet-Kaur-Bhurji/main
a2a701d 
Updated the MemberProductionCounts DC
@marcoooo
Merge pull request #557 from ens-sb/main
71aa9fd 
Added datacheck for timely release of eHive semaphors
@vinay-ebi
Merge pull request #561 from Ensembl/bugfix/elastic
1482a04 
Bugfix/elastic
@vinay-ebi
Merge pull request #558 from twalsh-ebi/main
ac3d51e 
Add datacheck MemberXrefAccessTime
@vinay-ebi
Merge pull request #560 from twalsh-ebi/feature/cactus_meta_consistency
db44364 
Add datacheck CactusMetadataConsistency
@marcoooo
Merge pull request #562 from Ensembl/release/111
f9772e8 
Release/111
@marcoooo
Updating test dbs to latest schema
816401b
@marcoooo
Merge pull request #563 from Ensembl/feature/test_db_patch_112
ec66e7f 
Updating test dbs to latest schema
@leannehaggerty
Fix for DC to check meta key consistency between core and core-like
dff0582
@JAlvarezJarreta
update query to fetch analysis information
b0d997f
@marcoooo
Merge pull request #566 from JAlvarezJarreta/patch-1
f77099f 
Update query to fetch analysis information
@marcoooo
2024 copyright update
3ec251c
@vinay-ebi
Merge pull request #569 from Ensembl/bau/copyright-2024
9eb9734 
Annual copyright update 2024
@vinay-ebi @marcoooo
added new param target_site to datacheck to filter metakeys
956a22d
@vinay-ebi @marcoooo
Update lib/Bio/EnsEMBL/DataCheck/Checks/ControlledMetaKeys.pm
902c42a 
Co-authored-by: Marc Chakiachvili <mchakiachvili@ebi.ac.uk>
@vinay-ebi @marcoooo
fix PR changes
3cf83e7
@marcoooo
Update DbDataChecks_conf.pm
2954a72 
Updated default es params
@marcoooo
Merge branch 'feature/mvp' into feature/mvp-rebase-main
540c34e
@marcoooo marcoooo marked this pull request as ready for review February 6, 2024 21:48
@marcoooo marcoooo self-assigned this Feb 6, 2024
@marcoooo marcoooo merged commit 96fc44d into feature/mvp Feb 8, 2024
2 checks passed
@marcoooo marcoooo deleted the feature/mvp-rebase-main branch February 23, 2024 15:24
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