Outdated instructions for releasing an assembly: Revision history

23 April 2012

• curprev 20:4320:43, 23 April 2012‎ Rhead talk contribs‎ 33,221 bytes −10‎ moved pressing the done button in the push queue to the end
• curprev 20:3120:31, 23 April 2012‎ Ann talk contribs‎ 33,231 bytes −195‎ →‎Add assembly to mirror exclude list
• curprev 20:3120:31, 23 April 2012‎ Ann talk contribs‎ 33,426 bytes −235‎ →‎Ask the pushers to remove assembly from mirror "exclude" list
• curprev 20:3020:30, 23 April 2012‎ Ann talk contribs‎ 33,661 bytes −227‎ →‎Verify that liftOvers are in liftOvers directories and not in vs* Directories
• curprev 20:1920:19, 23 April 2012‎ Rhead talk contribs‎ 33,888 bytes 0‎ moved check for phylogenetic order to staging section
• curprev 20:1920:19, 23 April 2012‎ Ann talk contribs‎ 33,888 bytes −251‎ →‎Check indices: removed (per Jim)

16 March 2012

• curprev 21:1621:16, 16 March 2012‎ Ann talk contribs‎ 34,139 bytes +76‎ →‎Check to ensure that there are enough tracks to be considered at least a "minimal" browser

9 March 2012

• curprev 22:0722:07, 9 March 2012‎ Greg talk contribs‎ 34,063 bytes +39‎ →‎Verify makedoc for all the tracks listed in the pushQ: Added example for updating all makedoc entries at once.
• curprev 19:2619:26, 9 March 2012‎ Greg talk contribs‎ m 34,024 bytes +5‎ →‎Check that all 3 copies of the .2bit file (gbdb, downloads, blat servers) are identical: put locations in a bullet list for easier reading
• curprev 19:1319:13, 9 March 2012‎ Greg talk contribs‎ m 34,019 bytes +1‎ →‎Turn on GenBank updates: added tilda before /kent/src/
• curprev 18:5118:51, 9 March 2012‎ Greg talk contribs‎ m 34,018 bytes −12‎ →‎dbDb: fixed incorrect wording

31 January 2012

• curprev 19:3119:31, 31 January 2012‎ Ann talk contribs‎ 34,030 bytes +12‎ →‎Check to ensure that there are enough tracks to be considered at least a "minimal" browser

30 January 2012

• curprev 20:2720:27, 30 January 2012‎ Ann talk contribs‎ 34,018 bytes +81‎ →‎Check to ensure that there are enough tracks to be considered at least a "minimal" browser
• curprev 20:1920:19, 30 January 2012‎ Ann talk contribs‎ 33,937 bytes +647‎ minimal browser

23 January 2012

• curprev 23:4823:48, 23 January 2012‎ Luvina talk contribs‎ 33,290 bytes +134‎ →‎Ask the pushers to remove assembly from mirror "exclude" list
• curprev 23:4823:48, 23 January 2012‎ Luvina talk contribs‎ 33,156 bytes −134‎ →‎Verify again that everything is working as expected on the RR

18 January 2012

• curprev 17:1017:10, 18 January 2012‎ Ann talk contribs‎ 33,290 bytes +407‎ NCBI Assembly database link

10 January 2012

• curprev 18:5718:57, 10 January 2012‎ Mary talk contribs‎ m 32,883 bytes +205‎ →‎Create a ticket in redmine for an N-Scan prediction track for this assembly: adding data requirements for making an N-Scan track, per Jeltje's request

22 November 2011

• curprev 00:0800:08, 22 November 2011‎ Steve talk contribs‎ 32,678 bytes +110‎ Changed /cluster/home/[yourname] to ~/. Added another note about the md5sum.txt file being sorted.

21 November 2011

• curprev 23:5823:58, 21 November 2011‎ Steve talk contribs‎ 32,568 bytes +737‎ Added line about automating the comparison of md5sum with md5sum.txt

15 November 2011

• curprev 21:5021:50, 15 November 2011‎ Steve talk contribs‎ 31,831 bytes +10‎ Added "tableList" to the list of tables to be dropped once the tables are pushed to beta

2 November 2011

• curprev 02:4502:45, 2 November 2011‎ Rhead talk contribs‎ 31,821 bytes −530‎ →‎Verify that the number of records in the upstream*.zip files is consistent: removed! These are made by an automated process now, and are less prone to error.

1 November 2011

• curprev 19:5719:57, 1 November 2011‎ Rhead talk contribs‎ 32,351 bytes +356‎ →‎Read and verify READMEs: added an instruction to check the genbank.conf file against the upstream* readme
• curprev 19:5519:55, 1 November 2011‎ Rhead talk contribs‎ 31,995 bytes +280‎ →‎Next day follow-up: added note to check for genbank-generated downloads

31 October 2011

• curprev 19:0319:03, 31 October 2011‎ Rhead talk contribs‎ 31,715 bytes +145‎ →‎Turn on GenBank updates: changed mark -> brian; added etc-update-server to the make per brian
• curprev 19:0019:00, 31 October 2011‎ Rhead talk contribs‎ 31,570 bytes +92‎ →‎Verify downloads: clarified how automatic downloads show up

27 October 2011

• curprev 19:0119:01, 27 October 2011‎ Rhead talk contribs‎ 31,478 bytes −99‎ →‎Verify downloads: clarification on automatic downloads from mark
• curprev 03:5703:57, 27 October 2011‎ Rhead talk contribs‎ 31,577 bytes +31‎ →‎Pre-staging of assembly on hgwbeta: added instruction to claim the redmine ticket in addition to claiming the assembly in the push queue
• curprev 03:5503:55, 27 October 2011‎ Rhead talk contribs‎ 31,546 bytes +135‎ changed instructions for n-scan request from emailing markd and jeltje to making a redmine ticket and assigning it to mark
• curprev 03:4603:46, 27 October 2011‎ Rhead talk contribs‎ 31,411 bytes +406‎ →‎Verify downloads: added note about the genbank downloads that get automatically generated.
• curprev 03:3803:38, 27 October 2011‎ Rhead talk contribs‎ 31,005 bytes +247‎ →‎Verify that the number of records in the upstream*.zip files is consistent: added instructions to count the records in each file without unzipping

19 April 2011

• curprev 22:4822:48, 19 April 2011‎ Greg talk contribs‎ 30,758 bytes +325‎ →‎defaultDb: Added text with instructions for organisms which are not currently on our browser. (i.e. there's nothing to UPDATE, you need to INSERT.
• curprev 21:5821:58, 19 April 2011‎ Greg talk contribs‎ 30,433 bytes +4‎ →‎genomeClade and gdbPdb: Organized section (again). ;-)
• curprev 21:5521:55, 19 April 2011‎ Greg talk contribs‎ 30,429 bytes +169‎ →‎genomeClade and gdbPdb: Further rearranging text and adding additional information for QA'er.
• curprev 21:2221:22, 19 April 2011‎ Greg talk contribs‎ 30,260 bytes +36‎ →‎genomeClade and gdbPdb: Reorganized adn Added text for clarification.
• curprev 21:1121:11, 19 April 2011‎ Greg talk contribs‎ m 30,224 bytes +2‎ →‎dbDb: Corrected terminal prompt to say hgwbeta for last two steps.
• curprev 21:0921:09, 19 April 2011‎ Greg talk contribs‎ 30,222 bytes −14‎ →‎Push chain/net tables in other organisms: Changed the bullet points to reflect the current format of chain net table names.
• curprev 01:0601:06, 19 April 2011‎ Greg talk contribs‎ m 30,236 bytes +2‎ →‎Check that the permissions are group protein writable (permissions should be at least 664): changed to genecats writable
• curprev 01:0501:05, 19 April 2011‎ Greg talk contribs‎ m 30,234 bytes +3‎ →‎Push Downloads from hgwdev to hgdownload: changed permission note to say genecats writable

15 April 2011

• curprev 21:5921:59, 15 April 2011‎ Greg talk contribs‎ m 30,231 bytes +61‎ →‎Update hgcentral: added text as reminder not to update defaultDb yet
• curprev 21:5821:58, 15 April 2011‎ Greg talk contribs‎ m 30,170 bytes −25‎ →‎Update hgcentral: removed defaultDb from table list ... too soon to do that
• curprev 21:5621:56, 15 April 2011‎ Greg talk contribs‎ m 30,195 bytes +150‎ →‎Update hgcentral: added list of tables that will need updating.

31 March 2011

• curprev 00:2500:25, 31 March 2011‎ Greg talk contribs‎ m 30,045 bytes −4‎ →‎Send email to markd and Jeltje van Baren (jeltje at cse.wustl.edu) so that they can start the N-Scan predictions: updated Jeltje's email address

23 March 2011

• curprev 23:0823:08, 23 March 2011‎ Greg talk contribs‎ m 30,049 bytes +1‎ →‎Push the database and tables from hgwdev to hgwbeta: corrected the promp to say beta rather than dev
• curprev 19:1019:10, 23 March 2011‎ Greg talk contribs‎ 30,048 bytes +14‎ →‎dbDb: slight workding change for clarity
• curprev 19:0919:09, 23 March 2011‎ Greg talk contribs‎ m 30,034 bytes +17‎ →‎Update hgcentralbeta: Moved the final metadata check to the end, so it is in step-wise order.

11 March 2011

• curprev 22:1822:18, 11 March 2011‎ Rhead talk contribs‎ 30,017 bytes +166‎ →‎Check all sample queries on hgGateway page: Added note to check for a range query in sample searches.
• curprev 03:2503:25, 11 March 2011‎ Rhead talk contribs‎ 29,851 bytes +247‎ →‎Update hgcentral.sql for mirrors: Decided that the script that builds hgcentral.sql should be run by the buildmeister.

10 March 2011

• curprev 21:5821:58, 10 March 2011‎ Vanessa talk contribs‎ 29,604 bytes +37‎ No edit summary

7 March 2011

• curprev 21:1621:16, 7 March 2011‎ Vanessa talk contribs‎ 29,567 bytes +29,567‎ New page: ==Pre-staging of assembly on hgwbeta== ===Check if chromosome sizes have changed significantly=== * If you are releasing an update to an assembly, check to see if chromosome sizes have ch...