Creating 2.14 release branch.


git-svn-id: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_14/madman/Rpacks/epivizr@88839 bc3139a8-67e5-0310-9ffc-ced21a209358
cleaning up README.md description
Commit made by the Bioconductor Git-SVN bridge.
Consists of 1 commit(s).

Commit information:

    Commit id: ce1a6ec0170c31f8416adfdf92a948057de68d1f
    Commit message:
    cleaning up README.md description
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-20T15:00:38-04:00

From: Bioconductor Git-SVN Bridge <bioc-sync@bioconductor.org>

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_14/madman/Rpacks/epivizr@89272 bc3139a8-67e5-0310-9ffc-ced21a209358
change url for v1
Commit made by the Bioconductor Git-SVN bridge.
Consists of 1 commit(s).

Commit information:

    Commit id: 2946bb5168f4014b643fcc87a64ab015ba8acacc
    Commit message:
    change url for v1
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-25T05:01:53-04:00

From: Bioconductor Git-SVN Bridge <bioc-sync@bioconductor.org>

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_14/madman/Rpacks/epivizr@89473 bc3139a8-67e5-0310-9ffc-ced21a209358
add version requirement for daemonized httpuv
Merge branch 'master' of https://github.com/epiviz/epivizr-release
Commit made by the Bioconductor Git-SVN bridge.
Consists of 2 commit(s).

Commit information:

    Commit id: 6cb51e3a4dec3d330a078c78d5763f2158a83fd4
    Commit message:
    add version requirement for daemonized httpuv
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-25T05:03:10-04:00

    Commit id: b09facb8049280c2aab0b71f0a0c552e960602eb
    Commit message:
    Merge branch 'master' of https://github.com/epiviz/epivizr-release
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-25T05:03:22-04:00

From: Bioconductor Git-SVN Bridge <bioc-sync@bioconductor.org>

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_14/madman/Rpacks/epivizr@89474 bc3139a8-67e5-0310-9ffc-ced21a209358
bug fix
hard code proxy to false for now
fix httpuv version spec
Merge branch 'master' of https://github.com/epiviz/epivizr-release
Commit made by the Bioconductor Git-SVN bridge.
Consists of 4 commit(s).

Commit information:

    Commit id: 16787d1b6fb630f04e486c478458452271e26e7d
    Commit message:
    bug fix
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-25T05:28:27-04:00

    Commit id: a213aa2259d98293987e26d2b66ea95348b2cc35
    Commit message:
    hard code proxy to false for now
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-25T09:44:44-04:00

    Commit id: 608793d328fd6b71d4f92fc6d7ed8a58b26e29e9
    Commit message:
    fix httpuv version spec
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-25T10:14:21-04:00

    Commit id: 8ee9695dd06d7879f823014d8e1c6dfdcf592f16
    Commit message:
    Merge branch 'master' of https://github.com/epiviz/epivizr-release
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-25T11:02:00-04:00

From: Bioconductor Git-SVN Bridge <bioc-sync@bioconductor.org>

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_14/madman/Rpacks/epivizr@89483 bc3139a8-67e5-0310-9ffc-ced21a209358
start migrating to v2
pull in v2 changes from devel branch
Modifications to make v2 work

* remove 'S4Vectors' calls
* fix bug in metadata for EpivizBpData
* all tests passed
* vignette runs in v2
Cleanup 'is.unsorted' import from IRanges

* change to 'IRanges::is.unsorted'
* remove LinkingTo field in Description
* add IRanges to Imports list
Commit made by the Bioconductor Git-SVN bridge.
Consists of 49 commit(s).

Commit information:

    Commit id: 415a9dd2aa37a70c9e480296eb3edea63a8719fd
    Commit message:
    resync with stuff moving from IRanges to S4Vectors

    git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/epivizr@89256 bc3139a8-67e5-0310-9ffc-ced21a209358
    Committed by hpages@fhcrc.org <hpages at fhcrc.org@bc3139a8-67e5-0310-9ffc-ced21a209358>
    Commit date: 2014-04-19T20:27:38Z

    Commit id: e9053fa44a9ae9cce19bb96232b21675bf09411b
    Commit message:
    Delete TODO
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-20T14:35:29-04:00

    Commit id: b373c3c710c3376d5914d8b47cfd2bd0628b9a87
    Commit message:
    Commit made by the Bioconductor Git-SVN bridge.
    Consists of 1 commit(s).

    Commit information:

        Commit id: e9053fa44a9ae9cce19bb96232b21675bf09411b
        Commit message:
        Delete TODO
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-20T14:35:29-04:00

    From: Bioconductor Git-SVN Bridge <bioc-sync@bioconductor.org>

    git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/epivizr@89269 bc3139a8-67e5-0310-9ffc-ced21a209358
    Committed by h.corradabravo <h.corradabravo at bc3139a8-67e5-0310-9ffc-ced21a209358>
    Commit date: 2014-04-20T18:35:34Z

    Commit id: b2c9079e62fbf2c8343f961efb55aa0f808141a1
    Commit message:
    Update README.md
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-20T14:42:00-04:00

    Commit id: b724fd486b9b9b28bfce57fb99572df89dee3191
    Commit message:
    Commit made by the Bioconductor Git-SVN bridge.
    Consists of 1 commit(s).

    Commit information:

        Commit id: b2c9079e62fbf2c8343f961efb55aa0f808141a1
        Commit message:
        Update README.md
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-20T14:42:00-04:00

    From: Bioconductor Git-SVN Bridge <bioc-sync@bioconductor.org>

    git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/epivizr@89270 bc3139a8-67e5-0310-9ffc-ced21a209358
    Committed by h.corradabravo <h.corradabravo at bc3139a8-67e5-0310-9ffc-ced21a209358>
    Commit date: 2014-04-20T18:42:06Z

    Commit id: f5a818778cc99212c0ed655a84406789622c6a7c
    Commit message:
    * version bump
    * fix use of wait_until in 'test-server.R'
    * all tests pass with post R-3.1 release
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-21T13:26:16-04:00

    Commit id: 7505533f9faf63de9f3f3d39979fdf38d17761cb
    Commit message:
    use explicit 'S4Vectors:::isNotSorted'
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-21T18:28:49-04:00

    Commit id: a5ee486c8e4c1ff4fc91adbed4d8581e4dc7b9a3
    Commit message:
    Commit made by the Bioconductor Git-SVN bridge.
    Consists of 1 commit(s).

    Commit information:

        Commit id: 7505533f9faf63de9f3f3d39979fdf38d17761cb
        Commit message:
        use explicit 'S4Vectors:::isNotSorted'
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-21T18:28:49-04:00

    From: Bioconductor Git-SVN Bridge <bioc-sync@bioconductor.org>

    git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/epivizr@89326 bc3139a8-67e5-0310-9ffc-ced21a209358
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    Commit date: 2014-04-21T22:29:12Z

    Commit id: e5e2838aebbc5ac6029cbfd2945606845a753062
    Commit message:
    Merge branch 'master' into newProvider
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-21T18:29:22-04:00

    Commit id: b206b802749b2c183d492beb499b1ba0d0ee306f
    Commit message:
    server test works again
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-21T19:07:24-04:00

    Commit id: 48d4251700a742bd2efa24960b12f74d2e98560f
    Commit message:
    connection through 'EpivizDeviceMgr' works again
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-21T19:36:29-04:00

    Commit id: 121cc24cdfefc17b1eb63d8a6bb97bd22535c7d1
    Commit message:
    measurement mgr for blocks ok
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-21T20:26:37-04:00

    Commit id: aac393baff128a3b92c6ce9ab2ac1d76369943a3
    Commit message:
    measurement management ok for bp data
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-21T21:58:45-04:00

    Commit id: 5165f647e96c0eb57347b37d6d407962d3f3e696
    Commit message:
    measurement mgr ok for feature data
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-21T22:05:08-04:00

    Commit id: f0b842abd031112c498fdfa4c5d4fac13c247fc3
    Commit message:
    getRows for blocks ok
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-21T23:29:13-04:00

    Commit id: 445e038884343878b8aa999337792f290e5d4c1e
    Commit message:
    getValues ok for feature data
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-22T01:15:24-04:00

    Commit id: 115023c89ec1e69b11dd43e49bfdfbbf3e8aa0eb
    Commit message:
    before cleanup
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-22T11:32:04-04:00

    Commit id: bb6196c0412a801645672826a0a5b74827b91bb2
    Commit message:
    refactored sorting and fixed update
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-22T12:16:40-04:00

    Commit id: 11bd10615f89bf06558a3983f7f4fad654bbf0cf
    Commit message:
    navigate and slideshow updated to v2
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-22T12:42:44-04:00

    Commit id: 13863d856b64ae33de33f9f5fd30423bb982b2b8
    Commit message:
    server and register test passed
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-22T13:01:28-04:00

    Commit id: f22fcf59dc64e6653b236b68cbb6242382deb653
    Commit message:
    addMeasurements test passed
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-22T13:42:55-04:00

    Commit id: 7d6eba0ded55683be885893c3a25b68647248f8c
    Commit message:
    measurement testing done
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-22T14:21:03-04:00

    Commit id: ae25e2dc36332889bf6ef76cc7a707259d037655
    Commit message:
    data fetch tests done
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-22T15:41:57-04:00

    Commit id: 7cbfb0a782ef83ef509f8fa1653f7b665f4e75da
    Commit message:
    add block chart ok
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-23T10:47:17-04:00

    Commit id: c9a9037ea1267f9b0716d63ffef63509ca4665e9
    Commit message:
    all add charts ok
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-23T10:52:20-04:00

    Commit id: f7b890014a6ccf750daa22ae50288f8ad399fac8
    Commit message:
    rmChart switched to v2
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-23T10:56:09-04:00

    Commit id: b5d83cd2e44f9ac82f0a34e423963ebb9512fe30
    Commit message:
    rmDevice tested
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-23T10:58:49-04:00

    Commit id: fce22f0ec3ef87366b497c28bebbe28b0313e8c1
    Commit message:
    update the vignette to v2
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-24T08:51:52-04:00

    Commit id: d2dc8c80de1254b28204962691a014ef23940a2b
    Commit message:
    * fix metadata scalar wrap error
    * add 'gists' argument to 'startEpiviz'
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-24T14:09:39-04:00

    Commit id: e6e72eccbc04460f82a6d31a94eb95be5063f836
    Commit message:
    debug vignette
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-24T15:35:54-04:00

    Commit id: 3a7595dd2a2b4828aa6f0826784e392a729c7cfe
    Commit message:
    fixed reorder bug
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-25T01:05:51-04:00

    Commit id: 55ca7587072ce7f3900bea730319688d4b7fc9b3
    Commit message:
    improve handling of metadata in 'EpivizFeatureData-class'
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-25T03:27:31-04:00

    Commit id: 275bd2be12a48e39625aa3239e3b1d9d48a05844
    Commit message:
    test charts ok
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-25T15:04:00-04:00

    Commit id: 88b32627f5c0fae3e4cefd72a8f2522cd3bf81b9
    Commit message:
    device tests ok
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-25T16:12:10-04:00

    Commit id: 21e5f9cab818b222d4b5f2af13a89e7744888ee9
    Commit message:
    push reorder call to class update method
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-26T06:16:28-04:00

    Commit id: 132f60e255078b3dbc64b599ab410aa2c0170d58
    Commit message:
    add 'gists' parameter description to 'startEpiviz.Rd'
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-26T06:28:15-04:00

    Commit id: f72efbce97ab74a80f666912c5669977b3946e57
    Commit message:
    Merge branch 'newProvider'

    This implements the new 'Data Provider API' used in Epiviz 2. See
    http://epiviz.cbcb.umd.edu/help for more details. The front-end
    epivizr API does not change at all. This commit also adds the
    'gists' argument to 'startEpiviz' so scripts can be imported
    to epiviz via github gists.
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-26T06:30:44-04:00

    Commit id: d111d1f7f8f119125c6803270000af24eda9609f
    Commit message:
    Commit made by the Bioconductor Git-SVN bridge.
    Consists of 30 commit(s).

    Commit information:

        Commit id: f5a818778cc99212c0ed655a84406789622c6a7c
        Commit message:
        * version bump
        * fix use of wait_until in 'test-server.R'
        * all tests pass with post R-3.1 release
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-21T13:26:16-04:00

        Commit id: e5e2838aebbc5ac6029cbfd2945606845a753062
        Commit message:
        Merge branch 'master' into newProvider
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-21T18:29:22-04:00

        Commit id: b206b802749b2c183d492beb499b1ba0d0ee306f
        Commit message:
        server test works again
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-21T19:07:24-04:00

        Commit id: 48d4251700a742bd2efa24960b12f74d2e98560f
        Commit message:
        connection through 'EpivizDeviceMgr' works again
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-21T19:36:29-04:00

        Commit id: 121cc24cdfefc17b1eb63d8a6bb97bd22535c7d1
        Commit message:
        measurement mgr for blocks ok
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-21T20:26:37-04:00

        Commit id: aac393baff128a3b92c6ce9ab2ac1d76369943a3
        Commit message:
        measurement management ok for bp data
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-21T21:58:45-04:00

        Commit id: 5165f647e96c0eb57347b37d6d407962d3f3e696
        Commit message:
        measurement mgr ok for feature data
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-21T22:05:08-04:00

        Commit id: f0b842abd031112c498fdfa4c5d4fac13c247fc3
        Commit message:
        getRows for blocks ok
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-21T23:29:13-04:00

        Commit id: 445e038884343878b8aa999337792f290e5d4c1e
        Commit message:
        getValues ok for feature data
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-22T01:15:24-04:00

        Commit id: 115023c89ec1e69b11dd43e49bfdfbbf3e8aa0eb
        Commit message:
        before cleanup
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-22T11:32:04-04:00

        Commit id: bb6196c0412a801645672826a0a5b74827b91bb2
        Commit message:
        refactored sorting and fixed update
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-22T12:16:40-04:00

        Commit id: 11bd10615f89bf06558a3983f7f4fad654bbf0cf
        Commit message:
        navigate and slideshow updated to v2
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-22T12:42:44-04:00

        Commit id: 13863d856b64ae33de33f9f5fd30423bb982b2b8
        Commit message:
        server and register test passed
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-22T13:01:28-04:00

        Commit id: f22fcf59dc64e6653b236b68cbb6242382deb653
        Commit message:
        addMeasurements test passed
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-22T13:42:55-04:00

        Commit id: 7d6eba0ded55683be885893c3a25b68647248f8c
        Commit message:
        measurement testing done
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-22T14:21:03-04:00

        Commit id: ae25e2dc36332889bf6ef76cc7a707259d037655
        Commit message:
        data fetch tests done
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-22T15:41:57-04:00

        Commit id: 7cbfb0a782ef83ef509f8fa1653f7b665f4e75da
        Commit message:
        add block chart ok
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-23T10:47:17-04:00

        Commit id: c9a9037ea1267f9b0716d63ffef63509ca4665e9
        Commit message:
        all add charts ok
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-23T10:52:20-04:00

        Commit id: f7b890014a6ccf750daa22ae50288f8ad399fac8
        Commit message:
        rmChart switched to v2
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-23T10:56:09-04:00

        Commit id: b5d83cd2e44f9ac82f0a34e423963ebb9512fe30
        Commit message:
        rmDevice tested
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-23T10:58:49-04:00

        Commit id: fce22f0ec3ef87366b497c28bebbe28b0313e8c1
        Commit message:
        update the vignette to v2
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-24T08:51:52-04:00

        Commit id: d2dc8c80de1254b28204962691a014ef23940a2b
        Commit message:
        * fix metadata scalar wrap error
        * add 'gists' argument to 'startEpiviz'
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-24T14:09:39-04:00

        Commit id: e6e72eccbc04460f82a6d31a94eb95be5063f836
        Commit message:
        debug vignette
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-24T15:35:54-04:00

        Commit id: 3a7595dd2a2b4828aa6f0826784e392a729c7cfe
        Commit message:
        fixed reorder bug
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-25T01:05:51-04:00

        Commit id: 55ca7587072ce7f3900bea730319688d4b7fc9b3
        Commit message:
        improve handling of metadata in 'EpivizFeatureData-class'
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-25T03:27:31-04:00

        Commit id: 275bd2be12a48e39625aa3239e3b1d9d48a05844
        Commit message:
        test charts ok
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-25T15:04:00-04:00

        Commit id: 88b32627f5c0fae3e4cefd72a8f2522cd3bf81b9
        Commit message:
        device tests ok
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-25T16:12:10-04:00

        Commit id: 21e5f9cab818b222d4b5f2af13a89e7744888ee9
        Commit message:
        push reorder call to class update method
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-26T06:16:28-04:00

        Commit id: 132f60e255078b3dbc64b599ab410aa2c0170d58
        Commit message:
        add 'gists' parameter description to 'startEpiviz.Rd'
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-26T06:28:15-04:00

        Commit id: f72efbce97ab74a80f666912c5669977b3946e57
        Commit message:
        Merge branch 'newProvider'

        This implements the new 'Data Provider API' used in Epiviz 2. See
        http://epiviz.cbcb.umd.edu/help for more details. The front-end
        epivizr API does not change at all. This commit also adds the
        'gists' argument to 'startEpiviz' so scripts can be imported
        to epiviz via github gists.
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-26T06:30:44-04:00

    From: Bioconductor Git-SVN Bridge <bioc-sync@bioconductor.org>

    git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/epivizr@89509 bc3139a8-67e5-0310-9ffc-ced21a209358
    Committed by h.corradabravo <h.corradabravo at bc3139a8-67e5-0310-9ffc-ced21a209358>
    Commit date: 2014-04-26T10:32:58Z

    Commit id: 49eaae9b93d5608442830d11d93dae51c883d09d
    Commit message:
    Update README.md

    Add message re. Epiviz2 and the devel version.
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-04-26T06:42:41-04:00

    Commit id: 85970dcbe029f2d2ed9737daebacc8c424ac6e41
    Commit message:
    Commit made by the Bioconductor Git-SVN bridge.
    Consists of 1 commit(s).

    Commit information:

        Commit id: 49eaae9b93d5608442830d11d93dae51c883d09d
        Commit message:
        Update README.md

        Add message re. Epiviz2 and the devel version.
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-04-26T06:42:41-04:00

    From: Bioconductor Git-SVN Bridge <bioc-sync@bioconductor.org>

    git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/epivizr@89511 bc3139a8-67e5-0310-9ffc-ced21a209358
    Committed by h.corradabravo <h.corradabravo at bc3139a8-67e5-0310-9ffc-ced21a209358>
    Commit date: 2014-04-26T10:42:47Z

    Commit id: efb81a83f7e7d834ef947172b8aba585ed11421d
    Commit message:
    * start refactoring how metadata used in EpivizFeatureData
    * clean up register test
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-05-06T09:18:40-04:00

    Commit id: 2f0565d1a6fd0ea53f134b4d604218ddf8766d8c
    Commit message:
    * continue refactoring metadata
    * clean up measurements test
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-05-06T10:09:47-04:00

    Commit id: d8ac4cdd6c922614c409a1b72ab8ad4e28341077
    Commit message:
    * fetch data tested
    * all tests passed
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-05-06T11:27:56-04:00

    Commit id: 8aec7d29b8f2c611589348a9a20053e3d8055fdd
    Commit message:
    hot fix done
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-05-06T12:01:00-04:00

    Commit id: e0c8593a1928b8bf00ae3d9e667e1ad6b0e16e56
    Commit message:
    Commit made by the Bioconductor Git-SVN bridge.
    Consists of 4 commit(s).

    Commit information:

        Commit id: efb81a83f7e7d834ef947172b8aba585ed11421d
        Commit message:
        * start refactoring how metadata used in EpivizFeatureData
        * clean up register test
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-05-06T09:18:40-04:00

        Commit id: 2f0565d1a6fd0ea53f134b4d604218ddf8766d8c
        Commit message:
        * continue refactoring metadata
        * clean up measurements test
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-05-06T10:09:47-04:00

        Commit id: d8ac4cdd6c922614c409a1b72ab8ad4e28341077
        Commit message:
        * fetch data tested
        * all tests passed
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-05-06T11:27:56-04:00

        Commit id: 8aec7d29b8f2c611589348a9a20053e3d8055fdd
        Commit message:
        hot fix done
        Committed by hcorrada <hcorrada at gmail.com>
        Commit date: 2014-05-06T12:01:00-04:00

    From: Bioconductor Git-SVN Bridge <bioc-sync@bioconductor.org>

    git-svn-id: https://hedgehog.fhcrc.org/bioconductor/trunk/madman/Rpacks/epivizr@89979 bc3139a8-67e5-0310-9ffc-ced21a209358
    Committed by h.corradabravo <h.corradabravo at bc3139a8-67e5-0310-9ffc-ced21a209358>
    Commit date: 2014-05-06T16:02:44Z

    Commit id: e6e934910a41256b9a42aa8218b557b393c0b2be
    Commit message:
    start migrating to v2
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-05-06T15:23:09-04:00

    Commit id: 9c4de8276b6f8be8259e2b5036644d2ea55b8586
    Commit message:
    pull in v2 changes from devel branch
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-05-06T15:35:05-04:00

    Commit id: ea82f03e7d176f3d398a677dcf2c2cec13b2856b
    Commit message:
    Modifications to make v2 work

    * remove 'S4Vectors' calls
    * fix bug in metadata for EpivizBpData
    * all tests passed
    * vignette runs in v2
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-05-07T06:23:15-04:00

    Commit id: ad08689fed296764e7f4c7115dee0d084764b8a5
    Commit message:
    Cleanup 'is.unsorted' import from IRanges

    * change to 'IRanges::is.unsorted'
    * remove LinkingTo field in Description
    * add IRanges to Imports list
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-05-07T07:49:21-04:00

From: Bioconductor Git-SVN Bridge <bioc-sync@bioconductor.org>

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_14/madman/Rpacks/epivizr@90030 bc3139a8-67e5-0310-9ffc-ced21a209358
ignore 'proxy' argument to 'startEpiviz'
Commit made by the Bioconductor Git-SVN bridge.
Consists of 1 commit(s).

Commit information:

    Commit id: 04047a7b252571e19cf4ab1284087c0905b4c458
    Commit message:
    ignore 'proxy' argument to 'startEpiviz'
    Committed by hcorrada <hcorrada at gmail.com>
    Commit date: 2014-05-07T13:43:28-04:00

From: Bioconductor Git-SVN Bridge <bioc-sync@bioconductor.org>

git-svn-id: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_2_14/madman/Rpacks/epivizr@90043 bc3139a8-67e5-0310-9ffc-ced21a209358