File Changes for kent

v386_preview to v386_preview2 (2019-07-29 to 2019-08-05) v386

• src/hca/fromGeo/geoStormToHcaStorm/geoStormToHcaStorm.c
  • lines changed 2, context: html, text, full: html, text
    7f1376a86f6b559c05763120e15b55c68ac7721d Fri Aug 2 15:58:08 2019 -0700
    Adding notice about it being obsolete really to usage message.
• src/hca/fromGeo/geoToHcaStorm/geoToHcaStorm.c
  • lines changed 275, context: html, text, full: html, text
    84a3604cd4c2ef2edab9afd8470f8c880bba7dd5 Thu Aug 1 10:08:45 2019 -0700
    Slimmed down version of geoStormToHcaStorm. This one does not do any deletion or renaming of tags. It does do a few things that are hopefully worthwhile - reformatting dates, extracting accessions from URLs, and pasting together full addresses mostly. Typically run after geoToTagStorm.
  • lines changed 8, context: html, text, full: html, text
    34d918b704c7eb48b559eb7bb480520cfdee62fd Fri Aug 2 16:02:43 2019 -0700
    Removing protocol reprocessing, with the new schema not needed.
  • lines changed 123, context: html, text, full: html, text
    ace543bb0ea601a9d7e23dce57bfcf6cfc571f7d Sat Aug 3 09:00:04 2019 -0700
    Adding in sra info.
  • lines changed 1, context: html, text, full: html, text
    81262509982f63796d795d670d111094b080246c Sat Aug 3 09:08:51 2019 -0700
    Fixing typo in file.read_index.
• src/hca/fromGeo/geoToHcaStorm/makefile
  • lines changed 3, context: html, text, full: html, text
    84a3604cd4c2ef2edab9afd8470f8c880bba7dd5 Thu Aug 1 10:08:45 2019 -0700
    Slimmed down version of geoStormToHcaStorm. This one does not do any deletion or renaming of tags. It does do a few things that are hopefully worthwhile - reformatting dates, extracting accessions from URLs, and pasting together full addresses mostly. Typically run after geoToTagStorm.
• src/tabFile/makefile
  • lines changed 2, context: html, text, full: html, text
    0096b565ed86ed6a93d0d4b3a43fb8a192bb39be Fri Aug 2 15:36:08 2019 -0700
    Adding tabToTabDir to the compile chain.
• src/tabFile/tabToTabDir/in.tsv
  • lines changed 467, context: html, text, full: html, text
    1bd63a5b1364a075195e59a06c8161244f934c59 Wed Jul 31 13:31:19 2019 -0700
    The tabToTabDir program seems to work.
• src/tabFile/tabToTabDir/inSpec.ra
  • lines changed 23, context: html, text, full: html, text
    1bd63a5b1364a075195e59a06c8161244f934c59 Wed Jul 31 13:31:19 2019 -0700
    The tabToTabDir program seems to work.
  • lines changed 2, context: html, text, full: html, text
    e4a0012a8cf9d60fb362903b27935dc6bf15d771 Fri Aug 2 15:48:57 2019 -0700
    Adding a NULL check that is needed for a new test case.
  • lines changed 12, context: html, text, full: html, text
    56493b0353fe3cbc20ffebda1be16dba47577784 Fri Aug 2 15:49:12 2019 -0700
    Updating test case.
• src/tabFile/tabToTabDir/makefile
  • lines changed 3, context: html, text, full: html, text
    1bd63a5b1364a075195e59a06c8161244f934c59 Wed Jul 31 13:31:19 2019 -0700
    The tabToTabDir program seems to work.
• src/tabFile/tabToTabDir/outDir/donor.tsv
  • lines changed 13, context: html, text, full: html, text
    1bd63a5b1364a075195e59a06c8161244f934c59 Wed Jul 31 13:31:19 2019 -0700
    The tabToTabDir program seems to work.
• src/tabFile/tabToTabDir/outDir/project.tsv
  • lines changed 2, context: html, text, full: html, text
    1bd63a5b1364a075195e59a06c8161244f934c59 Wed Jul 31 13:31:19 2019 -0700
    The tabToTabDir program seems to work.
• src/tabFile/tabToTabDir/outDir/sample.tsv
  • lines changed 467, context: html, text, full: html, text
    1bd63a5b1364a075195e59a06c8161244f934c59 Wed Jul 31 13:31:19 2019 -0700
    The tabToTabDir program seems to work.
• src/tabFile/tabToTabDir/tabToTabDir.c
  • lines changed 145, context: html, text, full: html, text
    1bd63a5b1364a075195e59a06c8161244f934c59 Wed Jul 31 13:31:19 2019 -0700
    The tabToTabDir program seems to work.
  • lines changed 3, context: html, text, full: html, text
    3bac9e69c474bacd569daee6b3a4d7c9a14166b0 Fri Aug 2 12:40:26 2019 -0700
    Getting rid of some uglyf debugging messages and reducing verbosity.
  • lines changed 96, context: html, text, full: html, text
    fe122ae0b137be8ee4dbeb0e64d9185190bd7e51 Fri Aug 2 14:29:14 2019 -0700
    Made it so that you list output column name first and can use constants as well as input column names to say where it comes from.
  • lines changed 25, context: html, text, full: html, text
    41f5cd680816b869e17b611553b498fb4c2d859d Fri Aug 2 14:42:54 2019 -0700
    Making the index for a table be expressed in that tables fields rather than the big input tables fields.
  • lines changed 84, context: html, text, full: html, text
    73cd280d40a79a084f10dc029693e0760f8f9f3a Fri Aug 2 15:22:24 2019 -0700
    Making this able to have a field that is a foriegn key to the primary ID in another table.
  • lines changed 7, context: html, text, full: html, text
    b825492ab638f55020b2054d445c8009cd09c94e Fri Aug 2 15:26:02 2019 -0700
    Improving usage message.
  • lines changed 3, context: html, text, full: html, text
    e4a0012a8cf9d60fb362903b27935dc6bf15d771 Fri Aug 2 15:48:57 2019 -0700
    Adding a NULL check that is needed for a new test case.
  • lines changed 44, context: html, text, full: html, text
    95d91fe3bbf9be3217ae5f075b05549326489929 Fri Aug 2 17:38:48 2019 -0700
    Adding support for picking one element from a csv cell.
  • lines changed 31, context: html, text, full: html, text
    f2b012bfbb525fda8d876b13425f4237601522f7 Fri Aug 2 21:38:43 2019 -0700
    Adding a # operator that'll give you a sha1 hash of the value. Finishing implementing @ operator.
  • lines changed 9, context: html, text, full: html, text
    ff052c8366616779b8fe428bb6630b80c14d1d4d Fri Aug 2 22:18:37 2019 -0700
    Switching to somewhat shorter md5 hash. Making first line of stanza have to start with 'table' to make the formatting stand out a little better.
• src/tagStorm/tagStormDeleteTags/tagStormDeleteTags.c
  • lines changed 1, context: html, text, full: html, text
    3a435016465624711bb3af8706398532d7b2f5b1 Fri Aug 2 15:55:45 2019 -0700
    Improving comment.
• src/tagStorm/tagStormToJson/tests/test.tags
  • lines changed 8, context: html, text, full: html, text
    b7c1b595e49b7bc00effe41db2b33fb1290c0e75 Fri Aug 2 15:53:42 2019 -0700
    Updating test set