Person

Form URL

http://mangolassi.caltech.edu/~postgres/cgi-bin/cecilia/person_editor.cgi (sandbox for testing)

New postgreSQL Tables

table 'two' does not have history, only has joinkey (two#), two value (integer), two_timestamp (timestamp)

all other tables have joinkey (two#), two_order (integer), two_

(data -- text), two_curator (two# -- text), two_timestamp (timestamp) :

• two_firstname
• two_middlename
• two_lastname
• two_standardname
• two_street
• two_city
• two_state
• two_post
• two_country
• two_institution
• two_old_institution
• two_old_inst_date
• two_mainphone
• two_labphone
• two_officephone
• two_otherphone
• two_fax
• two_email
• two_old_email
• two_old_email_date
• two_pis
• two_lab
• two_oldlab
• two_left_field
• two_unable_to_contact
• two_privacy
• two_aka_firstname
• two_aka_middlename
• two_aka_lastname
• two_webpage
• two_wormbase_comment
• two_hide
• two_status
• two_mergedinto
• two_acqmerge
• two_comment
• two_usefulwebpage

What is this section for ?

You asked me to put in wiki all the current tables and forms ceci If the To do part is the same as current I'll delete this part. ceci Current tables: These are forms, not tables, and aren't these the ones listed below under Todo for changing ? -- J http://tazendra.caltech.edu/~azurebrd/cgi-bin/forms/confirm_paper.cgi http://tazendra.caltech.edu/~postgres/cgi-bin/cecilia/two_display.cgi http://tazendra.caltech.edu/~postgres/cgi-bin/cecilia/twoeditor.cgi http://tazendra.caltech.edu/~azurebrd/cgi-bin/forms/paper_display.cgi http://tazendra.caltech.edu/~postgres/cgi-bin/paper_editor.cgi? http://tazendra.caltech.edu/~azurebrd/cgi-bin/forms/person.cgi http://tazendra.caltech.edu/~azurebrd/cgi-bin/forms/person_lineage.cgi

Para asociar a single match: You're missing /home/ in the first three, and the / in the last one -- J cecilia/work/UPLOAD/new-upload ./connect_single_match_authors_and_get_histogram.pl

Verificar papeles by labs and lineage cecilia/work/UPLOAD/new-upload ./verify_by_labs_or_lineage.pl

Email Persons for verification cecilia/work/UPLOAD/new-upload ./email_connected_authors.pl

Para upload acedb: home/acedb/cecilia/citace_upload/ ./get_pap_person_ace.pl > persons.ace

Changes between old and new tables

• Adding history tables as h_two_...
• Removing two_apu_ tables, two_groups
• Adding two_usefulwebpage, two_old_inst_date, two_old_email_date
• Changing two_comment into normal table with order
• Changing old_timestamp column to two_curator (all values will be 'two1')

Questions

Please confirm that no one uses this form http://tazendra.caltech.edu/~azurebrd/cgi-bin/forms/confirm_paper.cgi In the last year 111 IPs have used it (mostly once) but a couple of them over 100 each. If you don't use it, is it in the emails you send out or in the submit forms in WormBase ? -- J answer Please keep form, must be the one linking to old papers associated but not verified -- Ceci Sounds good, added to list of forms to check -- J thanks ceci

1681 two_middlename without value, is that okay ? SELECT * FROM two_middlename WHERE two_middlename = ' '; <-- no space in between the singlequotes --J answer It was from when we thoght that a data was needed in tag, please delete if not needed -- Ceci.

1004 two_middlename with NULL order, value, old_timestamp, what should we do with that ? SELECT * FROM two_middlename WHERE two_order IS NULL;

answer i've been adding aka_middlename = NULL to every aka entry, if it is not necessary them we can delete it, but if it is necessary please keep it. Talk tomorrow? Ceci. I am also fixing some typos showing searching in new Person editor Ceci I don't know if you need it to say 'NULL' or not, but I thought you were never supposed to have blank values, you can skype me whenever you want -- J will talk in person about all middle/aka names, empty values

two427 had under wormbase_comment :

• two427 | 1 | Due to illness, please get in touch with: Mark Edgley (edgley@interchange.ubc.ca) for gene knockout inquiries. Teresa Rogalski (rogalski@zoology.ubc.ca) for muscle lab matters. 2003-03-07 18:36:25.089309-08 | 2003-03-19 11:38:57.295736-08 |
• two427 | 1 | Lab:DM or VC | 2003-03-10 16:23:56.877045-08 | 2003-03-19 11:38:57.295736-08
• two427 | 2 | DM his own lab and VC head of the KO | 2008-01-31 00:00:00-08 | 2008-01-30 10:04:25.884154-08

Which has two order '1', I've deleted the first one, if you want to add it again as order '3' -- J. answer Deleted OK, thanks Ceci

Please comment on these changes :

• I've added history tables, and changed the postgres tables to store the curator in the 4th column where the old_timestamp used to be. Updating data updates the data table with current timestamp ; removes any history data for that table-joinkey-order in the last 10 minutes, and inserts with current timestamp. answer OK Ceci

• Street field always has at least 4 fields. answer YES ceci

• name and aka_name now show first/middle/last in a row with timestamp below them. answer Like it Ceci

• old_email shows data from old_email_date horizontally with timestamp. answer OK ceci

• old_institution shows old_inst_date data, and webpage shows usefulwebpage vertically because I assume you need more space, if you'd rather display them horizontally like old_email, let me know. answer OK ceci

• All changes to the person editing section of the person editor are done, please let me know if I overlooked something. answer looks ok, will look more in detail, thanks Juancarlos ceci Cool, let me know. Thanks -- J two_comment is missing ceci added - J' thanks, c

• In the Search Paper (to create people from XML) section, do you want to see input fields to create new people for authors that are already verified 'YES' ? Right now people that are verified 'YES' have a grey background, if you don't want to see the inputs, do you still want the grey background ? Probably easier to talk about this in person / skype. Some papers I tried were 00003865 00026893 -- J

wow thanks, looks really great, will look in more detail. Yes talk in person, lots of new stuffs, when do you have time? I have to be in Pasadena on Friday, is that OK with you? I like the grey part. Paper 00026893 is showing aid77392 Davis J - xml Jerel C. Davis - 1 matches two4351 (Ralph E. Davis) -> Are matches to last names even when it doesn't match first initial or first name? ceci Last name Davis, first initial J shouldn't it match to two3329 Justin R Davis, two4914 Jamie Davis, two7656 Joseph S. Davis? ceci Like the grey backgroud, but when clicked on Create people from XML volvio a crear Nadia D. Singh, va a haber un boton para marcar Do not create or ignore it?. Really love the multiple instititions - addresses (hide-show-assign), really like it!!! cec could you add old_instition? it will be useful when creating Persons form oldpapers,o when pdf shows currently at... I could add both datas. c

To Do

Check these forms / scripts :

• /home/postgres/public_html/cgi-bin/cecilia/two_display.cgi
• /home/postgres/public_html/cgi-bin/cecilia/twoeditor.cgi
• /home/postgres/public_html/cgi-bin/paper_editor.cgi
• /home/postgres/work/get_stuff/for_paul/curation_stats/wbperson_creation_stats/get_recent.pl
• /home/azurebrd/public_html/cgi-bin/forms/paper_display.cgi
• /home/azurebrd/public_html/cgi-bin/forms/person.cgi
• /home/azurebrd/public_html/cgi-bin/forms/person_lineage.cgi
• /home/azurebrd/public_html/cgi-bin/forms/confirm_paper.cgi
• /home/azurebrd/work/parsings/authorperson/citaceLineage/update_twos_in_two_lineage.pl
• /home/cecilia/UPLOAD/new-upload/connect_single_match_authors_and_get_histogram.pl
• /home/cecilia/UPLOAD/new-upload/verify_by_labs_or_lineage.pl
• /home/cecilia/UPLOAD/new-upload/email_connected_authors.pl
• /home/cecilia/work/gaps_in_twos/get_recent.pl
• /home/acedb/cecilia/citace_upload/get_pap_person_ace.pl

Work in progress Paper - Person track I'd like to have: Showing only: papers flagged from Person curation by Kimberly. Ignore: For fucntional annotations only, Invalid papers

WBPaper00000000 identifier link_to_paper_editor curated What's curated ? -- J Person curation, ceci

New script: that looks at all the stuff that was verified in the last 24 hours or by day, except for those exceptions below. I want to receive daily email notifications or list for every time a paper is verified NOT mine. Unless: - pap_author_verified 'NO Cecilia Nakamura' - pap_author_verified YES after verified NOT same day - do not read NOT if there is a YES in latest timestamp We'd get data from pap_author_verified, we can't tell what came in to there from generic.cgi as opposed to confirm_paper.cgi, we can only know the values and their timestamps. Thanks, ceci ``==<scripts scripts that run automatically>==