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| wigTableStats.sh
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| bigWigSummary
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| bigWigInfo
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| ==Getting Started==
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| # Check kent/src/hg/makeDb/doc/encodeDccHg18/*.txt to determine if/how the file diverges from reality.
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| # Make a list of all tables (new & updated that need to be pushed to beta)
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| # Run qaEncodeTracks.csh and check output
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| # Do bigPush.csh using list created above
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| # Remove "release alpha" lines from subtracks in trackDb.wgEncode.ra
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| # Push any new .wib or .bb files from hgwdev to hgnfs1 if applicable
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| ==Description Page==
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| # Read description page
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| # Make sure there is a link to the help doc (in the config section)
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| # Check that there is metadata by clicking on the "..." link in the tables list
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| # Is description page detailed enough?
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| # Is description page are the citations in correct format?
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| # Does the "Display Conventions and Configuration" section cover all track types?
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| # Test all hyper-links on description page.
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| # Test configuration section
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| # Test multi-view matrix
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| # Test "reset to defaults" button
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| # Make sure there's a link to the ENCODE Data Release Policy
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| ==Other things to check==
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| # Run genePredCheck/pslCheck if applicable. (i.e. if your track is a gene prediction track)
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| # Release log: Check to be sure the release log entry is right.
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| # Make sure the tracks in the Tier1 and Tier2 Cell Lines are properly colored (no black, and all tracks from one Cell Line have the same color).
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| # Make sure your track is listed on the downloads page - (push from hgwdev -> hgwbeta, RR) /usr/local/apache/htdocs/ENCODE/downloads.html
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| ==Files==
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| ===hgdownloads===
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| # make sure there is a preamble.html file in the /releaseN directory
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| # index.html
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| ## For releaseN: run the encodeDownloadsPage.pl script directly in the /releaseN directory to generate a new index.html page
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| ## Make sure this file is executable (because of the way the links are created)
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| ## Preamble should include brief description and link to the trackUi
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| ## should include a link to the files.txt and md5sum.txt files
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| ## For releaseN: should also include the release number at end of description
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| ## should contain the name of each file being released
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| ===Pushing Files===
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| # Push gbdb Files: hgwdev -> hgnfs1 (i.e. /gbdb/hg18/wib/wgEncode*.wib)
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| # Push other Files: hgwdev -> hgwbeta & RR (i.e. /usr/local/apache/htdocs/ENCODE/protocols/cell/*.pdf)
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| # Push download Files: hgwdev -> hgdownload (i.e. /usr/local/apache/htdocs/goldenPath/hg18/encodeDCC/wgEncode*/*) (Note: no releaseN directory on hgdownload)
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| # After Pushing Files: check push with: checkPushedFiles.csh
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| ==Testing in the Browser==
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| # Test one point from table to view in GB
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| # Zoom into base level (at different visibilities)
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| # Zoom way out 1million bps (at different visibilities)
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| # Searching: should items be searchable?
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| # default visibility: should this track be on by default?
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| # Check URL in Release Log (should go to track description page)
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| # Check for lab contact (sanitize email addresses using encodeEmail.pl script)
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| # Does the first 'Signal' subtrack pass the chr1 test (chr1 loads in less than one minute)
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| # Do all views for one experiment pass chr1 test (e.g. Pol2 in GM12878 cells)?
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| # Test the performance in a gene-size region of the track with just the default-on subtracks
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| ==Releasing to RR==
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| # Check the trackDb diffs to see if there is any reason that <db>.trackDb can't go out today
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| # If you determine that it's OK to push <db>.trackDb, then write to browser-qa "hands off <db>.trackDb"
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| # Check release log field in PushQ...needs to start with ENCODE
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| # Push track tables from mysqlbeta -> mysqlrr (not trackDb yet)
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| # Drop tables from hgwbeta that need to be removed (being replaced by V2 tables)
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| # Clean up trackDb (remove blocks for the dropped tables - currently marked release beta)
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| # Make strict for <db> on hgwbeta and check to make sure tracks look like you expect them to (all there and accounted for)
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| # Drop tables being removed from the RR
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| # Push trackDb, tableDescriptions and, if items are searchable (not usually for Encode), hgFindSpec
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| # Push download files and index.html (from hgwdev to hgdownload)
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| # Drop download files that need to be dropped (from hgdownload)
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| # Drop .wib files that need to be dropped (from hgnfs1)
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| # If necessary edit and push ENCODE/downloads.html from hgwdev -> hgwbeta & RR
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| # Push cv.ra file (only if there is a matrix)
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| # Cc the data wrangler for this track on all your pushes Cc encode@soe.ucsc.edu on your final push
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| [[Category:Browser_QA]]
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