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# Date Author Comment
7788 02/27/2013 09:53 PM Aaron Marcuse-Kubitza

Added inputs/SpeciesLink/_src/tapir_request.txt

7787 02/27/2013 09:52 PM Aaron Marcuse-Kubitza

Added schemas/TAPIR/

7786 02/27/2013 09:48 PM Aaron Marcuse-Kubitza

Added planning/use_cases/rare_species.png

7785 02/27/2013 09:47 PM Aaron Marcuse-Kubitza

Added planning/goals/BIEN deliverables.png

7784 02/27/2013 09:31 PM Aaron Marcuse-Kubitza

Added planning/resources/iPlant_Overview_BIEN_2011.pdf.url

7783 02/27/2013 09:29 PM Aaron Marcuse-Kubitza

planning/goals/Enquist_BIEN_Overview_2011.pptx: Replaced with .url file. Note that the Plone site <http://groups.nceas.ucsb.edu/bien/meetings> is not searchable by document filename.

7782 02/27/2013 09:26 PM Aaron Marcuse-Kubitza

Added planning/workflow/Boyle_BIEN_data_quality.pdf.url

7781 02/27/2013 09:21 PM Aaron Marcuse-Kubitza

Added planning/goals/BIEN_Science_2011.pptx.url, BIEN-Tech-Oct2011.ppt.url, Enquist_BIEN_Overview_2011.pptx

7780 02/27/2013 09:00 PM Aaron Marcuse-Kubitza

Added schemas/VegX/run.py

7779 02/27/2013 08:53 PM Aaron Marcuse-Kubitza

Added schemas/VegBIEN/growth_forms/Barbara_Dobrin.parsing.scripts/

7778 02/27/2013 08:35 PM Aaron Marcuse-Kubitza

Added schemas/VegX/Veg-X_paper_in_press_Applied_Vegetation_Science.pdf.url

7777 02/27/2013 08:25 PM Aaron Marcuse-Kubitza

Added schemas/VegX/JVS-VegX.pdf.url

7776 02/27/2013 08:22 PM Aaron Marcuse-Kubitza

Added schemas/VegBank/VegBank_Data_Model.with_Collections_intro.ppt

7775 02/27/2013 08:13 PM Aaron Marcuse-Kubitza

Added planning/goals/BIEN_White_Paper.pdf.url

7774 02/27/2013 08:11 PM Aaron Marcuse-Kubitza

Added planning/meetings/2010-12-08.working_group/BIEN3-plan.docx

7773 02/27/2013 08:04 PM Aaron Marcuse-Kubitza

Added schemas/VegBIEN/planning/taxonomy/On_the_Use_of_Taxonomic_Concepts_in_Support_of_Biodiversity_Research_and_Taxonomy.pdf.url

7772 02/27/2013 07:59 PM Aaron Marcuse-Kubitza

Added schemas/BIEN2/ERD/

7771 02/27/2013 07:54 PM Aaron Marcuse-Kubitza

Added schemas/BIEN2/bien2_core_schema.png

7770 02/27/2013 07:54 PM Aaron Marcuse-Kubitza

Added schemas/BIEN2/mappings/BIEN2.viewFullOccurrence-DwC.xls

7769 02/27/2013 07:51 PM Aaron Marcuse-Kubitza

Added schemas/VegBank/mappings/VegBank.observation-VegX.plotObservation.xls

7768 02/27/2013 07:49 PM Aaron Marcuse-Kubitza

schemas/vegbien.ERD.mwb: Fixed table positions due to plantobservation field addition

7767 02/27/2013 07:35 PM Aaron Marcuse-Kubitza

Added schemas/DiGIR/gbif-occurrencestore.digir.client.url

7766 02/27/2013 07:33 PM Aaron Marcuse-Kubitza

Added schemas/DiGIR/gbif-crawler.digir.*.url

7765 02/27/2013 07:27 PM Aaron Marcuse-Kubitza

inputs/.geoscrub/import_order.txt: Added Source

7764 02/27/2013 07:09 PM Aaron Marcuse-Kubitza

Added schemas/VegX/

7763 02/27/2013 07:00 PM Aaron Marcuse-Kubitza

Added schemas/VegBIEN/taxonomy/family_higher_plant_group.sql

7762 02/27/2013 06:57 PM Aaron Marcuse-Kubitza

Added planning/use_cases/Trait_BIEN_data_use_case.docx

7761 02/27/2013 06:56 PM Aaron Marcuse-Kubitza

Added planning/workflow/2010.working_group.white_board/

7760 02/27/2013 06:54 PM Aaron Marcuse-Kubitza

Added planning/milestones/_archive/BIEN3 Milestones and Development Timeline_MLN2.*

7759 02/27/2013 06:51 PM Aaron Marcuse-Kubitza

Added planning/workflow/BIEN-modArch-Dec2010 NS-SBD 1.4.ppt

7758 02/27/2013 06:50 PM Aaron Marcuse-Kubitza

Added planning/milestones/_archive/BIEN3_milestones.2011-12-13.doc

7757 02/27/2013 06:48 PM Aaron Marcuse-Kubitza

Added planning/milestones/BIEN Milestone – feedback.docx

7756 02/27/2013 06:46 PM Aaron Marcuse-Kubitza

Added schemas/VegBIEN/planning/taxonomy/Nomenclature_excerpt.ppt

7755 02/27/2013 06:44 PM Aaron Marcuse-Kubitza

Added planning/use_cases/

7754 02/27/2013 06:42 PM Aaron Marcuse-Kubitza

Added planning/meetings/2012-11-26~30.working_group/

7753 02/27/2013 06:41 PM Aaron Marcuse-Kubitza

Added schemas/BIEN2/Guide_to_the_BIEN2_database.pdf

7752 02/27/2013 06:39 PM Aaron Marcuse-Kubitza

Added planning/meetings/2011-10-24~28.working_group/

7751 02/27/2013 06:36 PM Aaron Marcuse-Kubitza

Added schemas/VegBIEN/planning/BIEN_OctWG-Whtbrd*.jpg

7750 02/27/2013 06:32 PM Aaron Marcuse-Kubitza

Added schemas/BIEN2/

7749 02/27/2013 06:29 PM Aaron Marcuse-Kubitza

Added schemas/VegBIEN/

7748 02/27/2013 06:20 PM Aaron Marcuse-Kubitza

Moved schemas/vegbank.* to schemas/VegBank/

7747 02/27/2013 06:15 PM Aaron Marcuse-Kubitza

Added planning/milestones/BIEN3 - Progress since the 2011 working group.docx

7746 02/27/2013 06:13 PM Aaron Marcuse-Kubitza

planning/meetings/: Added Martha's conference call notes

7745 02/27/2013 06:06 PM Aaron Marcuse-Kubitza

Moved planning/milestones.doc to planning/milestones/

7744 02/27/2013 06:04 PM Aaron Marcuse-Kubitza

Moved planning/timeline.* to timeline/

7743 02/27/2013 06:01 PM Aaron Marcuse-Kubitza

Renamed to_do/ to planning/

7742 02/27/2013 05:53 PM Aaron Marcuse-Kubitza

Added schemas/VegCore/

7741 02/27/2013 05:53 PM Aaron Marcuse-Kubitza

Added schemas/DwC/

7740 02/27/2013 05:35 PM Aaron Marcuse-Kubitza

Added schemas/BIEN_logo.png from the bien.nceas.ucsb.edu website

7739 02/27/2013 05:29 PM Aaron Marcuse-Kubitza

Renamed schemas/BIEN_logo.png to BIEN_logo.small.png

7738 02/27/2013 05:10 PM Aaron Marcuse-Kubitza

Added inputs/SALVIAS/_archive/salvias_bien_19nov2009.tar.gz.url, .md5

7737 02/27/2013 04:57 PM Aaron Marcuse-Kubitza

Added inputs/REMIB/_archive/remib_raw.0.header.specimens.txt

7736 02/27/2013 04:53 PM Aaron Marcuse-Kubitza

Added inputs/CTFS/_src/ctfs_extract.tab.url, .md5

7735 02/27/2013 04:48 PM Aaron Marcuse-Kubitza

Added inputs/NVS/_src/NVS_VegX.XSLT, _src/VegX/

7734 02/27/2013 04:43 PM Aaron Marcuse-Kubitza

Added inputs/NVS/_src/_README.TXT

7733 02/27/2013 04:41 PM Aaron Marcuse-Kubitza

Added inputs/TurboVeg/_src/DBASEDIC_rkp2011*.xlsx

7732 02/27/2013 04:40 PM Aaron Marcuse-Kubitza

Added inputs/TurboVeg/_src/_README.TXT

7731 02/27/2013 03:45 PM Aaron Marcuse-Kubitza

inputs/import.stats.xls: Updated import times

7730 02/27/2013 03:36 PM Aaron Marcuse-Kubitza

README.TXT: Full database import: Don't run backups/fix_perms with sudo because owners are not rsynced to jupiter, so fixing them first is unnecessary. (It's not necessary to change the file owner to bien at any other time, either, because commands are not run as the bien user. It's in fact better to leave the file owner as yourself, to allow rsync to set the modification times.)

7729 02/27/2013 03:24 PM Aaron Marcuse-Kubitza

README.TXT: Full database import: Added steps to set $version in all vegbiendev terminals

7728 02/27/2013 03:00 PM Aaron Marcuse-Kubitza

lib/common.Makefile: rsync: $(rsync): Also exclude .lk* lock files

7727 02/27/2013 02:57 PM Aaron Marcuse-Kubitza

README.TXT: Full database import: Updated log file sync steps for syncing via jupiter

7726 02/27/2013 02:56 PM Aaron Marcuse-Kubitza

inputs/BRIT/specimen_flat/test.xml.ref: Updated inserted row count

7725 02/26/2013 08:27 PM Aaron Marcuse-Kubitza

schemas/py_functions.sql: Added _date(year integer, month integer, day integer)

7724 02/26/2013 08:08 PM Aaron Marcuse-Kubitza

inputs/BRIT/specimen_flat/postprocess.sql: Added primary key

7723 02/26/2013 07:40 PM Aaron Marcuse-Kubitza

schemas/functions.sql: Added _dms_to_dd() that takes text arguments and casts them to the appropriate type

7722 02/26/2013 07:11 PM Aaron Marcuse-Kubitza

inputs/HVAA/Specimen/map.csv: Remapped fieldNotes to UNUSED. This also fixes a bug where fieldNotes was colliding with other occurrenceRemarks inputs because it was missing a filter.

7721 02/26/2013 06:46 PM Aaron Marcuse-Kubitza

schemas/vegbien.sql: analytical_specimen/analytical_plot: Added occurrenceRemarks

7720 02/26/2013 06:32 PM Aaron Marcuse-Kubitza

inputs/REMIB/Specimen/map.csv: Mapping NULL-equivalent lat/long to NULL: Fixed bug where need special *=* mapping to pass through values not in the map

7719 02/26/2013 06:30 PM Aaron Marcuse-Kubitza

inputs/REMIB/Specimen/map.csv: Map NULL-equivalent text fields (country, state, etc.) to NULL

7718 02/26/2013 06:23 PM Aaron Marcuse-Kubitza

inputs/REMIB/Specimen/map.csv: Map NULL-equivalent lat/long to NULL

7717 02/26/2013 05:59 PM Aaron Marcuse-Kubitza

inputs/SpeciesLink/Specimen/map.csv: dwc_dwcore_Remarks: Remapped to occurrenceRemarks (it had been incorrectly automapped to taxonRemarks). Combined occurrenceRemarks inputs using /_alt.

7716 02/26/2013 05:47 PM Aaron Marcuse-Kubitza

mappings/VegCore.htm: Regenerated from wiki. Remapped organismNotes to be a synonym of occurrenceRemarks, since notes on an organism are more generally notes on an occurrence.

7715 02/26/2013 05:28 PM Aaron Marcuse-Kubitza

inputs/HVAA/Specimen/map.csv: Remapped dynamicProperties to occurrenceRemarks because it contains occurrenceRemarks data

7714 02/26/2013 05:23 PM Aaron Marcuse-Kubitza

schemas/vegbien.sql: analytical_stem_view: Added occurrenceRemarks

7713 02/26/2013 05:19 PM Aaron Marcuse-Kubitza

mappings/VegCore-VegBIEN.csv: Mapped occurrenceRemarks

7712 02/26/2013 04:53 PM Aaron Marcuse-Kubitza

mappings/VegCore-VegBIEN.csv: Only use one of collection and collectionURL instead of concatenating them when both are provided (as requested by Brad <https://projects.nceas.ucsb.edu/nceas/projects/bien/wiki/Spot-checking#ACAD&gt;)

7711 02/26/2013 04:53 PM Aaron Marcuse-Kubitza

mappings/VegCore-VegBIEN.csv: _avg(): Use numeric param names to work with SQL functions

7710 02/26/2013 04:52 PM Aaron Marcuse-Kubitza

mappings/VegCore-VegBIEN.csv: _avg(): Use numeric param names to work with SQL functions

7709 02/26/2013 04:44 PM Aaron Marcuse-Kubitza

inputs/FIA/_src/_README.TXT: Added e-mail from Brad Boyle on 2013-2-8

7708 02/26/2013 04:42 PM Aaron Marcuse-Kubitza

inputs/FIA/_src/: Added attachments from Brad's e-mail on 2013-2-8

7707 02/26/2013 04:37 PM Aaron Marcuse-Kubitza

xml_func.py: Removed no longer used _range(). Use SQL functions._range() instead.

7706 02/26/2013 04:34 PM Aaron Marcuse-Kubitza

schemas/functions.sql: Added _range()

7705 02/26/2013 04:30 PM Aaron Marcuse-Kubitza

xml_func.py: Removed no longer used _avg(). Use SQL functions._avg() instead.

7704 02/26/2013 04:29 PM Aaron Marcuse-Kubitza

schemas/functions.sql: Added _avg()

7703 02/26/2013 04:27 PM Aaron Marcuse-Kubitza

mappings/VegCore-VegBIEN.csv: _avg(): Use numeric param names to work with SQL functions

7702 02/26/2013 04:15 PM Aaron Marcuse-Kubitza

schemas/functions.sql: _dms_to_dd(text): Corrected concatenated form to interpret last 5 digits as MMmmm = MM.mmm instead of MMSSS, per Tom Wendt's explanation that this form is "degrees/minutes/decimalminutes"

7701 02/26/2013 04:05 PM Aaron Marcuse-Kubitza

inputs/MO/Specimen/postprocess.sql: Use :table instead of hardcoding "MO"."Specimen"

7700 02/26/2013 04:04 PM Aaron Marcuse-Kubitza

inputs/MO/Specimen/postprocess.sql: Also remove frameshifted rows where InstitutionCode is NULL

7699 02/26/2013 03:44 PM Aaron Marcuse-Kubitza

inputs/UNCC/Specimen/map.csv: herbarium->specimenIndexer: Replace UNCCD (UNCC database?) with UNCC

7698 02/26/2013 03:27 PM Aaron Marcuse-Kubitza

schemas/functions.sql: functions._dms_to_dd(): Added support for DMS values without separators

7697 02/26/2013 03:09 PM Aaron Marcuse-Kubitza

README.TXT: Datasource setup: Update vegbiendev: Removed command to run the tests on vegbiendev because vegbiendev no longer has an empty public schema for running tests on (the public schema instead contains the latest published import)

7696 02/26/2013 03:04 PM Aaron Marcuse-Kubitza

Mapped inputs/BRIT/

7695 02/26/2013 02:36 PM Aaron Marcuse-Kubitza

my2pg: Remove (0) after char

7694 02/26/2013 02:35 PM Aaron Marcuse-Kubitza

my2pg: Remove any (#) after bytea

7693 02/26/2013 02:33 PM Aaron Marcuse-Kubitza

my2pg: Translate binary to bytea

7692 02/26/2013 02:30 PM Aaron Marcuse-Kubitza

README.TXT: Datasource setup: MySQL inputs: Editing _MySQL/*.make: Set $server to vegbiendev instead so the export command will work from any machine (though it will be faster from vegbiendev itself)

7691 02/26/2013 02:28 PM Aaron Marcuse-Kubitza

inputs/BRIT/_MySQL/MySQL.*.sql.make: Fixed bug where needs to be set to just localhost and --user to bien instead

7690 02/26/2013 02:27 PM Aaron Marcuse-Kubitza

README.TXT: Datasource setup: MySQL inputs: Editing _MySQL/*.make: Fixed bug where $server needs to be set to just localhost and --user to bien instead.

7689 02/26/2013 02:25 PM Aaron Marcuse-Kubitza

lib/MySQL.*.sql.make: Added --user option to demonstrate how to set the DB user vs. the ssh user