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| == Post Release Checklist for UCSC Genes ==
| | This page is no longer maintained. |
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| This page capture the things to remember after the release of UCSC Genes for the new assembly. | |
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| * Update the metadata in hgcentral:
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| ::set hgNearOk and hgPbOk = 1 in the dbDb table.
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| :: change defaultDb to the new assembly.
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| :: add a record in the gdbPdb table that points the assembly to the recent protein database.
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| * Check to see if otherOrgs.ra file is updated for this assembly in:
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| ::kent/src/hg/hgGene/hgGeneData/$org/$db/otherOrgs.ra
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| *For human, mouse and rat ask for a push of:
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| :: /usr/local.apache/htdocs/knownGeneList/$db/*
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| ::: from hgwdev --> /usr/local/apache/htdocs/knownGeneList/
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| :: /usr/local/apache/htdocs/knownGeneLists.html (update this file to point to the new assembly)
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| ::: from hgwdev --> /usr/local/apache/htdocs/
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| ::: on all 8 RR machines and MGC
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| * Add the link to the protein database /goldenPath/proteinDB/proteinsYYMMDD/database/ in:
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| :: downloads.html file
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| :: Also, include the new assembly in this file: /goldenPath/proteinDB/proteinsYYMMDD/database/README.txt (and edit it out of the previous file).
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| * Alert Ensembl:
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| Please e-mail this information to Glenn Proctor <glenn@ebi.ac.uk> and cc Ewan Birney <birney@ebi.ac.uk>. They would like UCSC Gene IDs, and coordinates and/or sequences. One problem is
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| that they handle randoms differently to us and display individual scaffolds instead of an artificially created random chromosome like we do. We might also send them the knownToEnsembl table, too.
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| [[Category:Browser_QA]]
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