Checklist for 14.9 - Githubissues

Rfam / rfam-production

Rfam production pipeline

Apache License 2.0

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Checklist for 14.9 #122

Closed emmaco closed 1 year ago

emmaco commented 2 years ago

Data updates

[x] Export annotated CM and SEED files
[x] Update PDB mapping
[x] Run view processes
[x] Run clan competition
[x] Run make_rfam_keywords_table.pl
[x] Update family_ncbi
[x] Update the family table (number_of_species and num_full fields)
[x] Update the version table
[x] Update RNAcentral descriptions

Update FTP archive

[x] Create .release FTP directory
[x] database_files
[x] fasta_files
[x] genome_browser_hub
[x] rfam2go
[x] COPYING
[x] README including Section 5
[x] Rfam.clanin
[x] Rfam.cm.gz
[x] Rfam.full_region.gz
[x] Rfam.pdb.gz
[x] Rfam.seed.gz
[x] Rfam.seed_tree.gz
[x] Rfam.tar.gz
[x] USERMAN
[x] stats file

Pre Announce

[x] Update EBI text search on wwwdev
[x] Update the website
[x] Add release graphic
[x] Update pages with new data (e.g. microRNA or viral project pages)
[x] Merge new code into rfam-website master
[x] Update the REL MySQL database
[x] Stop Apache in OY
[x] Update the OY web production MySQL database
[x] Update rfamweb_local.conf (fields ebi_search and connect_info) in OY
[x] Deploy new website code in OY
[x] Start Apache in OY
[x] Verify OY VMs directly
[x] Repeat for PG
[x] Move.release FTP directory to release
[x] Update CURRENT FTP symlink
[x] Update Public MySQL database using Sequel Ace
[x] Load new data into a new database called rfam_xx_x
[x] Rename the Rfam database to rfam_xx_y
[x] Rename the rfam_xx_x database to Rfam
[x] Delete old databases to save space on PUB
[x] Update EBI cmscan search - check that it automatically picks up the new covariance models from the production FTP location
[x] Update RNAcentral sequence search
[x] update rfam_local.py config to latest db

Announce

[x] Publish blog post with the Rfam tag
[x] Post on Twitter

Post Announce

[x] Close GitHub release project
[x] Review GitHub issues
[x] Backup old text search files - tar.gz folder in search_dumps
[x] Update EBI text search in production
[x] Make sure production website uses production search index
[x] Update Rfam models in R2DT
[x] Update Rfam taxonomy and create a new GitHub release
[x] Create a release checklist for the next release

emmaco commented 2 years ago

Update family_ncbi Update the family table (number_of_species and num_full fields) Update the version table

these are all done by the script populate_rfamlive_for_release.py --all