Commits for kent
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v312_preview2 to v312_base (2015-02-09 to 2015-02-16) v312
- Added functions to index a field.
- src/lib/fieldedTable.c - lines changed 39, context: html, text, full: html, text
- Adding missing part to the 'only include me once' bracketing of this include file.
- Adding functions to get all fields mentioned in a tagStorm.
- Adding a comment.
- src/tagStorm/tagStormInfo/c - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
- src/tagStorm/tagStormInfo/tagStormInfo.c - lines changed 1, context: html, text, full: html, text
- Making it so that you can have wildcards on the field list, and so that it will abort if the field list in the query contains fields not in the tag storm.
- src/tagStorm/tagStormQuery/tagStormQuery.c - lines changed 52, context: html, text, full: html, text
- Removing stray file
- src/tagStorm/tagStormInfo/c - lines changed 0, context: html, text, full: html, text (a binary file or whitespace-only change shows no diff)
- Fixing cdwFileName for manifest.txt and meta.txt files.
- src/hg/cirm/cdw/cdwSubmit/cdwSubmit.c - lines changed 2, context: html, text, full: html, text
- Fixing cdwFileName.
- src/hg/cirm/cdw/fix/cdwFixCdwFileNamePath/cdwFixCdwFileNamePath.c - lines changed 55, context: html, text, full: html, text
- src/hg/cirm/cdw/fix/cdwFixCdwFileNamePath/makefile - lines changed 4, context: html, text, full: html, text
- Fix utility to restore update times seems to work.
- src/hg/cirm/cdw/fix/cdwFixUpdateTime/cdwFixUpdateTime.c - lines changed 62, context: html, text, full: html, text
- src/hg/cirm/cdw/fix/cdwFixUpdateTime/makefile - lines changed 4, context: html, text, full: html, text
- Utility to swap symlinks into warehouse for submitted files seems to work mostly.
- src/hg/cirm/cdw/cdwSwapInSymLink/cdwSwapInSymLink.c - lines changed 68, context: html, text, full: html, text
- src/hg/cirm/cdw/cdwSwapInSymLink/makefile - lines changed 4, context: html, text, full: html, text
- Coming up with a unique identifier for the sample-level data. Changing tag names to fit documentation where they differed.
- src/hg/cirm/quakeLab/quakeFakeMouseManifest/quakeFakeMouseManifest.c - lines changed 21, context: html, text, full: html, text
- Added wildExpandList() function.
- Moving wildExpandList to library.
- src/tagStorm/tagStormQuery/tagStormQuery.c - lines changed 39, context: html, text, full: html, text
- Expanding wildcards in field list, so allowing select *. Also implementing count(*) function.
- src/hg/cirm/cdw/cdwQuery/cdwQuery.c - lines changed 32, context: html, text, full: html, text
- Fixing typo in comment.
- src/hg/cirm/cdw/lib/cdw.as - lines changed 1, context: html, text, full: html, text
- Implementing file recognizers for jpg and cram files. Restricting tags to just ones that are documented.
- src/hg/cirm/cdw/inc/cdwValid.h - lines changed 18, context: html, text, full: html, text
- src/hg/cirm/cdw/lib/cdwValid.c - lines changed 97, context: html, text, full: html, text
- Putting in validators for cram, jpg, text, and html files.
- src/hg/cirm/cdw/cdwMakeValidFile/cdwMakeValidFile.c - lines changed 51, context: html, text, full: html, text
- Adding support for cram, jpg, html, and text files. Checking all tags are defined in meta.txt.
- src/hg/cirm/cdw/cdwSubmit/cdwSubmit.c - lines changed 34, context: html, text, full: html, text
- Fixing a part/file_part mixup, and ''/NULL mixup.
- src/hg/cirm/cdw/lib/cdwLib.c - lines changed 2, context: html, text, full: html, text
- Adding cirm css initially as a clone of encode3.css. Hmm. So huge!
- src/hg/htdocs/style/cirm.css - lines changed 8194, context: html, text, full: html, text
- src/hg/htdocs/style/cirmUcsc.css - lines changed 58, context: html, text, full: html, text
- src/hg/htdocs/style/makefile - lines changed 1, context: html, text, full: html, text
- Switching rql's integral type from int to long long since it's dealing some with file sizes that overflow 32 bits.
- Adding cgiEncodeHash and cgiParseNext functions.
- Changed tagStormNew's parameter name from fileName to more generic name, since they are built in memory sometimes too.
- Supporting count command in addition to select.
- src/tagStorm/tagStormQuery/tagStormQuery.c - lines changed 10, context: html, text, full: html, text
- Freen tests cgiParseNext.
- src/hg/oneShot/freen/freen.c - lines changed 46, context: html, text, full: html, text
- Making the little authentication by persona stuff work for cdw web works.
- src/hg/js/cdwPersona.js - lines changed 45, context: html, text, full: html, text
- Adjusting metadata to new cdw way.
- src/hg/cirm/quakeLab/quakeFakeMouseManifest/quakeFakeMouseManifest.c - lines changed 9, context: html, text, full: html, text
- Adding cdwMetaTags table, and a field that refers to it in cdwFile.
- src/hg/cirm/cdw/inc/cdw.h - lines changed 71, context: html, text, full: html, text
- src/hg/cirm/cdw/lib/cdw.as - lines changed 9, context: html, text, full: html, text
- src/hg/cirm/cdw/lib/cdw.c - lines changed 169, context: html, text, full: html, text
- src/hg/cirm/cdw/lib/cdw.sql - lines changed 12, context: html, text, full: html, text
- Saving metadata tags in cdwMetaTags table.
- src/hg/cirm/cdw/cdwSubmit/cdwSubmit.c - lines changed 94, context: html, text, full: html, text
- Reworking to get metadata tags from cdwMetaTags table rather than tagStorm file.
- src/hg/cirm/cdw/cdwQuery/cdwQuery.c - lines changed 125, context: html, text, full: html, text
- Just changing some text visible to user to be more consistent.
- src/hg/cirm/cdw/cdwWebBrowse/cdwWebBrowse.c - lines changed 2, context: html, text, full: html, text
- Moving cdwTagStorm to library and polishing it a little.
- src/hg/cirm/cdw/inc/cdwLib.h - lines changed 7, context: html, text, full: html, text
- src/hg/cirm/cdw/lib/cdwLib.c - lines changed 136, context: html, text, full: html, text
- Moving tagStormFromDatabase into cdwTabStorm library function. Making count(*) queries work.
- src/hg/cirm/cdw/cdwQuery/cdwQuery.c - lines changed 92, context: html, text, full: html, text
- Reworking away from a submission oriented view to an executive summary. Also letting you query with RQL.
- src/hg/cirm/cdw/cdwWebBrowse/cdwWebBrowse.c - lines changed 199, context: html, text, full: html, text
- Adding function for adding long long integer or double values to storm.
- Moving cdwTagStorm function to it's own file and expanding it to include additional tags.
- src/hg/cirm/cdw/lib/cdwLib.c - lines changed 140, context: html, text, full: html, text
- src/hg/cirm/cdw/lib/cdwTagStorm.c - lines changed 234, context: html, text, full: html, text
- Moving cdwTagStorm function to it's own file and expanding it to include additional tags.
- src/hg/cirm/cdw/lib/makefile - lines changed 2, context: html, text, full: html, text
- Sorting field list.
- src/hg/cirm/cdw/cdwQuery/cdwQuery.c - lines changed 1, context: html, text, full: html, text
- Adding map_to_ribosome and map_to_repeat tags.
- src/hg/cirm/cdw/lib/cdwTagStorm.c - lines changed 30, context: html, text, full: html, text
- Adding map_to_ contaminant tags.
- src/hg/cirm/cdw/lib/cdwTagStorm.c - lines changed 36, context: html, text, full: html, text
- Updating metadata on old files during resubmissions.
- src/hg/cirm/cdw/cdwSubmit/cdwSubmit.c - lines changed 20, context: html, text, full: html, text
- Adding seq_sample, data_set_id, and keywords to acceptable tags.
- src/hg/cirm/cdw/lib/cdwValid.c - lines changed 3, context: html, text, full: html, text
- Adding info from cdwBamFile
- src/hg/cirm/cdw/lib/cdwTagStorm.c - lines changed 44, context: html, text, full: html, text
- A test case for the append option.
- src/tagStorm/tagStormJoinTab/more.tab - lines changed 26, context: html, text, full: html, text
- Updating code for long long vs. int.
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