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====2/8/2017 WEDNESDAY Id Id2 Geography Total; Estimate; Population 25 years and over Total; Estimate; Population 25 years and over - High school graduate (includes equivalency) Total; Margin of Error; Population 25 years and over - High school graduate (includes equivalency) Total; Margin of Error; Population 25 years and over - High school graduate (includes equivalency) Percent; Margin of Error; Population 25 years and over - High school graduate (includes equivalency) Total; Estimate; Population 25 years and over - Associate's degree Total; Margin of Error; Population 25 years and over - Associate'9AMs degree Percent; Estimate; Population 25 years and over -11AMAssociate's degree Percent; Margin of Error; Population 25 years and over - Associate'==== s degree* Attempted to come up with possible cases for locating the description Total; Estimate; Population 25 years and over - Bachelor's degree Total; Margin of Error; Population 25 years and over - Bachelor's degree Percent; Estimate; Population 25 years and over - Bachelor's degree Percent; Margin of Error; Population 25 years and over - Bachelor's degree Total; Estimate; Population 25 years and over - Graduate or professional degree Total; Margin of Error; Population 25 years and over - Graduate or professional degree Percent; Estimate; Population 25 years and over - Graduate or professional degree Percent; Margin of accelerators Error; Population 25 years and over - pick up from extracting bodies Graduate or professional degree Percent; Estimate; Percent high school graduate or higher Percent; Margin of text from the about page (given that it exists)Error; Percent high school graduate or higher Percent; Estimate; Percent bachelor's degree or higher Percent; Margin of Error; Percent bachelor's degree or higher
====2/13/2017 MONDAY *Complications:**For csv files corresponding to years 2015 & 2016, all of the above columns exist.**For csv files corresponding to years 2005 - 2014, no 'Percent'2PM-6PMcolumns exist*** Instead their 'Total'====columns are percentage values* Goals (for trials): 1) Build ER Diagram 2) *For each entitycsv file corresponding to year 2005, get XML snippet 3) Build a parser/ripper for single file; the python parser can be found at: E:\McNair\Projects\FDA Trials\Jeemin_Projectcolumns regarding Graduate or professional degree are labeled differently.* [[Trial Data Project]]*2012 data doesn't correspond to Population 25 years and over.
====2/15/2017 WEDNESDAY ''9AM-11AM''====*Temporary Solution:* Discussed with Catherine what to do with FDA Trial data and decided *Since the above problems may be specific to have a dictionary with zip-codes as keys and number this set of trials occurred in that zipcode as values. Was still attempting to loop tables, will go through the csv files without the code having to exist in the same directory as the XML files. Plan to write to excel via tsv, with zip-code as one column and # of occurrence as the otheradjust columns.
====2/17/2017 FRIDAY ''2PM-6PM''====* Completed code for counting the number of occurrences for each unique zipcode. (currently titled & located: E:\McNair\Projects\FDA Trials\Jeemin_Project\Jeemin_Running_File.py). It has been running for 20+min because of the comprehensive XML data files. Meanwhile started coding to create a dictionary with the keys corresponding to each unique trial ID, mapped to every other information (Python script location, sponsors, phase, drugs ...etc.) (currently titled & located: E:\McNair\Projects\FDA TrialsAgglomeration\Jeemin_ProjectACS_Downloaded_Data\Jeemin_FDATrial_as_key_data_rippingpullCertainColumns.py).
====2/20/2017 MONDAY ''2PM-410-31:30PM''====* Continued working on Jeemin_FDATrial_as_key_data_rippingFinished doanloading files from ACS.* Started loading tables into tigertest.py to find tags and place all of those information * Commands run could be found in a list. The other zipcode file did not finish executing after 2+ hours of running it - considering the possibility of splitting the record file into smaller bits, or running the processing on a faster machine E:\McNair\Projects\Agglomeration\ACS_Downloaded_Data\DataLoading_SQL_Commands.txt
====2/22/2017 WEDNESDAY ''9AM-1210-30:30PM''====* Finished Jeemin_FDATrial_as_key_data_ripping.py (E:\McNair\Projects\FDA Trials\Jeemin_Project\Jeemin_FDATrial_as_key_data_ripping.py)Downloaded data from ACS, which outputs to be continued* File path: E:\McNair\Projects\FDA TrialsAgglomeration\Jeemin_Project\general_data_ripping_output.txt; TODOACS_Downloaded_Data* Fields of interest: output four different tables & replace the write in the same for S1401 SCHOOL ENROLLMENT S1501 EDUCATIONAL ATTAINMENT S2301 EMPLOYMENT STATUS B01003 TOTAL POPULATION B02001 RACE B07201 GEOGRAPHICAL MOBILITY B08303 TRAVEL TIME TO WORK B19013 MEDIAN HOUSEHOLD INCOME B19053 SELF-loop as going through each fileEMPLOYMENT INCOME IN THE PAST 12 MONTHS FOR HOUSEHOLDS B19083 GINI INDEX OF INCOME INEQUALITY B25003 TENURE B25105 MEDIAN MONTHLY HOUSING COSTS B28011 INTERNET SUBSCRIPTIONS IN HOUSEHOLD G001 GEOGRAPHIC IDENTIFIERS
====2/24/2017 FRIDAY ''2:30PM-610-23:30PM''====* Continued working on producing multiple tables - first two are doneTalked to Ed with Peter & Oliver about upcoming tasks & projects. Was working * Loaded acs_place table 2017 (does not contain population) on location, as there are multiple location tags per locationtigertest.** SQL commands used:
====2/27/2017 MONDAY ''2PM-6PM''====* Finished producing tables from Jeemin_FDATrial_as_key_data_ripping.py* Talked to Julia about LinkedIn data extracting - to be discussed further with Julia & Peter.* Started web crawler for Wikipedia - currently pulls Endowment, Academic staff, students, undergraduates, and postgraduates info found on Rice Wikipedia page. Can be found in : E:\McNair\Projects\University Patents\Jeemin_University_wikipedia_crawler.py DROP TABLE acs_place;
====3/1/2017 WEDNESDAY ''9AM-12PM''==== CREATE TABLE acs_place (* Started re-running Jeemin_FDATrial_as_key_data_ripping.py USPS varchar(5), GEOID varchar(30), ANSICODE varchar(30), NAME varchar(100), LSAD varchar(30), FUNCSTAT varchar(10), ALAND varchar(30), AWATER varchar(30), ALAND_SQMI varchar(30), AWATER_SQMI varchar(30), INTPTLAT varchar(30), INTPTLONG varchar(30) );
====3 \COPY acs_place FROM '/3bulk/2017 FRIDAY 2017_Gaz_place_national.txt''2PM; --5PM''====* Attempted to output sql tablesCOPY 29578
====3/6/017 MONDAY ''2PM-6PM''====* TODO:* [[Installing python in a database]]* Find acs place 2016 data for population* Added building Python function section to [[Working with PostgreSQL]] at the bottom of the page.* Ran FDA Trial data ripping againFind larger acs files, as ideally at the text output files were wiped. place level* Plan on discussing with Julia and Meghana again about pulling universities and other relevant institutions from the Assignee List USA. * Talked to Sonia about pulling city, state, zipcode information, hence python was installed in a database. Will work with Sonia Provide more documentation on Wednesday afternoon and see how best a regex function could be implementedPOSTGIS & geocoding
====3/8/2017 WEDNESDAY ''9AM-12PM''====10-16:* Output sql tables Exported maps of points from finished run of Jeemin_FDATrial_as_key_data_rippingthe Bay Area each year.py * Ran through assigneelist_USA.txt to see how many different ways UNIVERSITY could be spelled wrong. There were many* Map used location: E:\McNair\Projects\Agglomeration\HarrisonPeterWorkArcGIS\Jeemin_Bay_Area Points_Every_Year\BayAreaEveryYearMap** Zoom scale: 1:650.000* Tried to logic through creating a pattern that could catch all different versions Location of UNIVERSITY. Discuss further on whether UNIVERSITIES and those that include UNIVERSITIES but include Bay Area Points png files: INC in the end should be pulled as relevant informationE:\McNair\Projects\Agglomeration\HarrisonPeterWorkArcGIS\Jeemin_Bay_Area Points_Every_Year
====32017-10-10:*Discoveries/ Struggles regarding.gdb to .shp file conversion:** Esri Production Mapping (costly)*** License needs to be purchasesd: http://8www.esri.com/2017 WEDNESDAY ''2PMsoftware/arcgis/extensions/production-5PM ''====mapping/pricing* Wrote regex pattern that identifies all "university" matchings * Use ogr2ogr from gdal package*** https://gis.stackexchange.com/questions/14432/migrating-geodatabase-data-into-postgis-without-esri- can be found in Eapps*** Command:\McNair\Projects\University Patents\university_pulled_from_assignee_list_USA ogr2ogr -- is an output f "ESRI Shapefile" [Destination of shapefile] [path to gdb file]* Talked to Sonia, but didn't come to solid conclusion on identifying whether key words associate with city or country by running a python function** Problem installing gdal
====3/13/2017 MONDAY ''12PM-2PM10-09:* TODO''====S:** Downloading data onto tigertest*** Road*** Railway*** Coastline* For University Patent Data Matching - matched SCHOOL (output** Instructions: Ehttp:\McNair\Projects\University Patents\school_pulled_from_assignee_list_USA//www.edegan.com/wiki/PostGIS_Installation#Bulk_Download_TIGER_Shapefiles** Configure census data from American Community Survey (ACS)*** 1) and matched INSTITUTEWork out what data is of our interest (outputconfirm ACS)*** 2) Determine appropriate shape file unit: E:\McNair\Projects\University Patents\institute_pulled_from_assignee_list_USA)**** census block vs. census block group vs. census track* [[University Patent Matching]] * To be worked on later: Grant XML parsing & general name matcher* 3) Load into tigertest
====3* Done:** Downloaded data from https://www.census.gov/cgi-bin/14geo/2017 TUESDAY ''12PMshapefiles/index.php tl_2017_us_coastline -- 4209 tl_2017_us_primaryroads -- 11574 tl_2017_us_rails -2PM''====- 176237* Started pulling academy cases but there are too many cases * Link found to worry about, in terms of institution of interestpotentially download ACS data: https://www. A document is located in E:\McNair\Projects\University Patents\academies_verify_casescensus.txt* Need Juliagov/geo/maps-data/data/Meghana to look through the hits and see which are relevant & extract pattern from theretiger-data. html* Having trouble outputting txt file without double quotes around every line. * Thinking that one text file should be output for all keywords instead of having one each, to avoid overlap (ex) COLLEGE and UNIVERSITY are both keywords; ALBERT EINSTEIN COLLEGE OF YESHIVA UNIVERSITY will be hit twice if * But most files on it were counted as two separate instances, one accounting for COLLEGE come with .gdb extension and the other for UNIVERSITY) - either in the form of if-elseif statements or one big regex checknot .shp
====3/15/2017 WEDNESDAY ''9AM-1PM''====10-03:* Todo: write a wikipage Installed PostGIS & is now visible on possible input/output info on string matcher* Wrote part of XML parser, extracted yearly data into E:\McNair\Projects\Federal Grant Data\NSF\NSF Extracted Data (up to year 2010)pgAdmin III
====* ArcGIS (connect to postgis database):** 1) Open ArcMap** 2) Either open blank or open existing file/project** 3/16/2017 THURSDAY ) Click on 'Add Data'12PMbutton with a cross and a yellow diamond (under Selection toolbar)** 4) Go to the top-2PMmost directory by pressing on the arrow that points left-then-up (on the left of home button)** 5) Click on 'Database Connections'** 6) Click on 'Add Database Connection'====(if Connection to localhost.sde) does not exist already)** 7) Fill in the following fields:*** Database Platform: PostgreSQL*** Instance: localhost* Further documented [[University Patent Matching]]** User name: postgres* Finished writing XML Parser** Password: *** Database: tigertest** 8) Press 'OK'** 9) Now you'll have 'Connection to localhost.sde' in your Database Connections** 10) Double click on 'Connection to localhost.sde'** 11) Double click on the table of interest** 12) Click 'Finish'** 13) You'll see information populated on map, as one of the 'Layers'*** Tested with: tigertest.public.copointplacescontains
====3/20/2017 MONDAY * On running & altering Oliver''2PMs script: ** Location: E:\McNair\Projects\OliverLovesCircles\src\python\vc_circles.py** Ed manipulated file names so that underscores would replace dots (St.Louis --6PM''====> St_Louis)* Talked to Julia about universal matcher, want to combine all University * Takes in instances and sweep times as part of California's to University of Californiathe argument, The Regents ofbut not impactful as those variables are hardcoded in the script* Converted crunchbase2013 data from mySQL to PostgreSQL, but having trouble * Ran vc_circles.py with the last table - cb_relationships, complains about syntax error at or near some places - but generally all tables exist in database called crunchbasefollowing variables with changed values:*** SWEEP_CYCLE_SECONDS = 10 (used to be 30)*** NUMBER_INSTANCES = 16 (used to be 8)* Federal Grant Data XML Parser was run - the three * New output textfiles can to be found in : E:\McNair\Projects\Federal Grant DataOliverLovesCircles\NSFout
====3/22/2017 WEDNESDAY ''9AM-12PM10-02:* Talked to Harrison & Peter regarding ArcGIS** Currently have points plotted on Houston** Trouble interpreting geometry type, as currently reads in from text file** Documents located in : E:\McNair\Projects\Agglomeration\HarrisonPeterWorkArcGIS* Attempted to install PostGIS spatial extention from PostgreSQL but getting 'spatial database creation failed'====error message.* Read string matching & calculating distance, below are relevant links* Referenced instructions: * [http** https://www.cs.cmugpsfiledepot.educom/~wcohentutorials/postscript/ijcaiinstalling-and-setting-up-postgresql-wswith-2003.pdf]postgis/* [http://web.archive.org/web/20081224234350/** http://www.dcsbostongis.shef.ac.ukcom/~sam/stringmetricsPrinterFriendly.html]aspx?content_name=postgis_tut01
====3/24/2017 FRIDAY ''2PM-5PM''====09-26:* Discussed with Julia & Meghana about university keys Created a table that maps a state to use to count the database name.** http://www.edegan.com/wiki/PostGIS_Installation# of occurrencesTranslating_Table_names_to_corresponding_States* Added more GIS-information (functions, including aliases and misspellingsrealm & outliers to consider)* Thoughts* http: to use a scoring metric with a key of UNIVERSITY OF CALIFORNIA SYSTEM, it should have a 'better' score when compared to MATHEMATICAL SCIENCES PUBLISHERS C/O UNIVERSITY OF CALIFORNIA BERKELEY or CALIFORNIA AT LOS ANGELES, UNVIERSITY OF than when compared to UNIVERSITY OF SOUTHERN CALIFORNIA, which may pose a challenge when attempting to implement this in a more general sense/www. In normalizing a string, strip "THE", "," and split words by spaces and compare each keyword from the two stringsedegan. Deciding on which strings com/wiki/Urban_Start-up_Agglomeration#GIS_Resources* Visualization in PostGIS or connecting to compare will be another issue - length ArcGIS for visualization (within some range maybeimport/export data) could be an option. * Federal Grant Data XML Parser was rerun - same output textfilesSpatial indexing:** http://revenant.ca/www/postgis/workshop/indexing.html
====3/27/2017 MONDAY ''2PM-6PM''====09-25:* Writing code for university matches - decided Talked to go through keys instead Ed about GIS, Census data, and going about determining the correctness of reported 'place.' Currently script makes a cross product of each dataitemreported place and an existing place, outputting a column of boolean value to indicate whether the reported place's coordinates fell within a place's geometric boundaries. Use keywords in each key One other way of going about this which we discussed is to first check if the reported place does fall within that place's boundaries. If it isn't, we'll go through about the dataitem - misspellings are currently unaccounted forcross product method.
====3* To add documentation : ** http:/29/2017 WEDNESDAY''2PM-5PM''====* Troubled by the variety of cases - separating keys by keywords will not work favorably when it hits University of California vswww. University of Southern California case - find a way to match University of Southern California first (more specific ones first) - but how to generalizeedegan...====4com/12wiki/2017 WEDNESDAY''9AM-12PM''====PostGIS_Installation* Finishing up cleaning the columns for Federal Grant Data - NIH. The output excel files can be accessed at* http: E:\McNair\Projects\Federal Grant Data\NIH\Grants Titled: Jeemin_combined_files 1986-2001//www.csv Jeemin_combined_files 2002-2012edegan.csv Jeemin_combined_files 2013com/wiki/Urban_Start-2015.csvup_Agglomeration
CREATE TABLE all_grants (*Relevant File paths: APPLICATION_ID integer,**E:\McNair\Projects\Agglomeration\TestGIS.sql ACTIVITY varchar(3),**Z:\VentureCapitalData\SDCVCData\vcdb2\ProecssingCoLevelSimple.sql ADMINISTERING_IC varchar(2), APPLICATION_TYPE varchar(1), ARRA_FUNDED varchar(1), AWARD_NOTICE_DATE date, BUDGET_START date, BUDGET_END date, CFDA_CODE varchar(3), CORE_PROJECT_NUM varchar(11), ED_INST_TYPE varchar(30), FOA_NUMBER varchar(13), FULL_PROJECT_NUM varchar(35), FUNDING_ICs varchar(40), FUNDING_MECHANISM varchar(23), FY smallint, IC_NAME varchar(77), NIH_SPENDING_CATS varchar(295), ORG_CITY varchar(20), ORG_COUNTRY varchar(16), ORG_DEPT varchar(30), ORG_DISTRICT smallint, ORG_DUNS integer, ORG_FIPS varchar(2), ORG_NAME varchar(60), ORG_STATE varchar(2), ORG_ZIPCODE integer, PHR varchar(200), PI_IDS varchar(30), PI_NAMEs varchar(200), PROGRAM_OFFICER_NAME varchar(36), PROJECT_START date, PROJECT_END date, PROJECT_TERMS varchar(200), PROJECT_TITLE varchar(244), SERIAL_NUMBER smallint, STUDY_SECTION varchar(4), STUDY_SECTION_NAME varchar(100), SUBPROJECT_ID smallint, SUFFIX varchar(2), SUPPORT_YEAR smallint, DIRECT_COST_AMT integer, INDIRECT_COST_AMT integer, TOTAL_COST integer, TOTAL_COST_SUB_PROJECT integer ); **Z:\VentureCapitalData\SDCVCData\vcdb2\COPY all_grants FROM 'Jeemin_combined_files 1986-2001CitiesWithGT10Active.csv' WITH DELIMITER AS E'\t' HEADER NULL AS ''CSVtxt
====4/14/2017 FRIDAY-09-21:* Functions for Linear Referencing: '''ST_LineInterpolatePoint(geometry A, double measure)''': Returns a point interpolated along a line. '''ST_LineLocatePoint(geometry A, geometry B)''2PM-5PM': Returns a float between 0 and 1 representing the location of the closest point on LineString to the given Point. '''ST_Line_Substring(geometry A, double from, double to)''': Return a linestring being a substring of the input one starting and ending at the given fractions of total 2d length. '''ST_Locate_Along_Measure(geometry A, double measure)''': Return a derived geometry collection value with elements that match the specified measure. '''ST_Locate_Between_Measures(geometry A, double from, double to)'''====: Return a derived geometry collection value with elements that match the specified range of measures inclusively.* Loaded Federal Grants Data into database '''ST_AddMeasure(geometry A, double from, double to)''': Return a derived geometry with measure elements linearly interpolated between the start and end points. If the geometry has no measure dimension, one is added.
====4/17/2017 MONDAY*3-D Functions: '''ST_3DClosestPoint''' — Returns the 3-dimensional point on g1 that is closest to g2. This is the first point of the 3D shortest line. '''ST_3DDistance''' — For geometry type Returns the 3-dimensional cartesian minimum distance (based on spatial ref) between two geometries in projected units. '''ST_3DDWithin''' — For 3d (z) geometry type Returns true if two geometries 3d distance is within number of units. '''ST_3DDFullyWithin''' — Returns true if all of the 3D geometries are within the specified distance of one another. '''2PMST_3DIntersects''' — Returns TRUE if the Geometries “spatially intersect” in 3d -4PMonly for points and linestrings ''===='ST_3DLongestLine''' — Returns the 3-dimensional longest line between two geometries '''ST_3DMaxDistance''' — For geometry type Returns the 3-dimensional cartesian maximum distance (based on spatial ref) between two geometries in projected units. '''ST_3DShortestLine''' — Returns the 3-dimensional shortest line between two geometries
====4/17/2017 WEDNESDAY''9AM-12PM''====* To pull acceleratorsRelevant PostgreSQL Commands: Wrote simple python regex-based script that ran on organizations data. Code: E:'''\McNair\Projects\Accelerators\Crunchbase Snapshot\accelerator keywordsdt *.py*''' Show all tables Matched output (885 mathces) : E:'''\McNair\Projects\Accelerators\Crunchbase Snapshot\Jeemin_885_accel_matchesq''' Exit table
====9*Specifities/11/2017 MONDAY''4PM-6PM''====Outliers to consider: New York (decompose) Princeton area (keep Princeton unique) Reston, Virginia (keep) San Diego (include La Jolla)* Ensured that documentation exists for the projects worked on last semester. Silicon Valley (all distinct)
====9* Continue reading from: https:/12/2017 TUESDAY''9AM-10:40AM & 1PM-2:20PM & 4PM-5:30PM''====* Clarified University Matching output filepostgis.* Helped Christy with pdf-reader, capturing keywords in readable formatnet/docs/postgis_installation.html
..2017-09-20:* Attended first intro to GIS course yesterday* Updated above notes on GIS
====9/18/2017 MONDAY''4PM-6PM''====
* Read documentation on PostGIS and tiger geocoder
* Continue reading from: http://workshops.boundlessgeo.com/postgis-intro/joins.html
====9/19/2017 TUESDAY''9AM-10:40AM & 1PM09-219:20PM''====
====9/20/2017 WEDNESDAY''3:50PM-5:20PM''====
* Attended first intro to GIS course yesterday
* Updated above notes on GIS
* Continue reading from:
====9/21/2017 THURSDAY''9AM-1209-18:30PM''====* Functions for Linear ReferencingRead documentation on PostGIS and tiger geocoder* Continue reading from: '''ST_LineInterpolatePoint(geometry A, double measure)'''http: Returns a point interpolated along a line//workshops. '''ST_LineLocatePoint(geometry A, geometry B)''': Returns a float between 0 and 1 representing the location of the closest point on LineString to the given Pointboundlessgeo.com/postgis-intro/joins.html '''ST_Line_Substring(geometry A, double from, double to)''': Return a linestring being a substring of the input one starting and ending at the given fractions of total 2d length. '''ST_Locate_Along_Measure(geometry A, double measure)'''2017-09-12: Return a derived geometry collection value with elements that match the specified measure. '''ST_Locate_Between_Measures(geometry A, double from, double to)''': Return a derived geometry collection value with elements that match the specified range of measures inclusively* Clarified University Matching output file. '''ST_AddMeasure(geometry A, double from, double to)''': Return a derived geometry * Helped Christy with measure elements linearly interpolated between the start and end points. If the geometry has no measure dimensionpdf-reader, one is addedcapturing keywords in readable format.
*32017-09-D Functions11: '''ST_3DClosestPoint''' — Returns the 3-dimensional point on g1 * Ensured that is closest to g2. This is the first point of the 3D shortest line. '''ST_3DDistance''' — For geometry type Returns the 3-dimensional cartesian minimum distance (based on spatial ref) between two geometries in projected units. '''ST_3DDWithin''' — For 3d (z) geometry type Returns true if two geometries 3d distance is within number of units. '''ST_3DDFullyWithin''' — Returns true if all of the 3D geometries are within the specified distance of one another. '''ST_3DIntersects''' — Returns TRUE if the Geometries “spatially intersect” in 3d - only documentation exists for points and linestrings '''ST_3DLongestLine''' — Returns the 3-dimensional longest line between two geometries '''ST_3DMaxDistance''' — For geometry type Returns the 3-dimensional cartesian maximum distance (based projects worked on spatial ref) between two geometries in projected unitslast semester. '''ST_3DShortestLine''' — Returns the 3-dimensional shortest line between two geometries
*Relevant PostgreSQL Commands: '''\dt *.*''' Show all tables '''\q''' Exit table</onlyinclude>
*Specifities/ Outliers to consider: New York (decompose) Princeton area (keep Princeton unique) Reston, Virginia (keep) San Diego (include La Jolla) Silicon Valley (all distinct)===Spring 2017===
====9/25/2017 MONDAY''4PM-6PM''====04-14:* Talked to Ed about GIS, Census data, and going about determining the correctness of reported 'place.' Currently script makes a cross product of each reported place and an existing place, outputting a column of boolean value to indicate whether the reported place's coordinates fell within a place's geometric boundaries. One other way of going about this which we discussed is to first check if the reported place does fall within that place's boundaries. If it isn't, we'll go about the cross product method.Loaded Federal Grants Data into database
*Relevant File paths: CREATE TABLE all_grants (**E:\McNair\Projects\Agglomeration\TestGIS.sql APPLICATION_ID integer, ACTIVITY varchar(3), ADMINISTERING_IC varchar(2), APPLICATION_TYPE varchar(1), ARRA_FUNDED varchar(1), AWARD_NOTICE_DATE date, BUDGET_START date, BUDGET_END date, CFDA_CODE varchar(3), CORE_PROJECT_NUM varchar(11), ED_INST_TYPE varchar(30), FOA_NUMBER varchar(13), FULL_PROJECT_NUM varchar(35), FUNDING_ICs varchar(40), FUNDING_MECHANISM varchar(23), FY smallint, IC_NAME varchar(77), NIH_SPENDING_CATS varchar(295), ORG_CITY varchar(20), ORG_COUNTRY varchar(16), ORG_DEPT varchar(30), ORG_DISTRICT smallint, ORG_DUNS integer, ORG_FIPS varchar(2), ORG_NAME varchar(60), ORG_STATE varchar(2), ORG_ZIPCODE integer, PHR varchar(200), PI_IDS varchar(30), PI_NAMEs varchar(200), PROGRAM_OFFICER_NAME varchar(36), PROJECT_START date, PROJECT_END date, PROJECT_TERMS varchar(200), PROJECT_TITLE varchar(244), SERIAL_NUMBER smallint, STUDY_SECTION varchar(4), STUDY_SECTION_NAME varchar(100), SUBPROJECT_ID smallint, SUFFIX varchar(2), SUPPORT_YEAR smallint, DIRECT_COST_AMT integer, INDIRECT_COST_AMT integer, TOTAL_COST integer, TOTAL_COST_SUB_PROJECT integer );**Z:\VentureCapitalData \SDCVCData\vcdb2\ProecssingCoLevelSimpleCOPY all_grants FROM 'Jeemin_combined_files 1986-2001.sql**Z:csv' WITH DELIMITER AS E'\VentureCapitalData\SDCVCData\vcdb2\CitiesWithGT10Active.txtt' HEADER NULL AS ''CSV
====9/26/2017 TUESDAY ''9AM-12PM''====03-29:* Created a table that maps a state to Troubled by the database namevariety of cases - separating keys by keywords will not work favorably when it hits University of California vs.** http://mcnair.bakerinstitute.org/wiki/PostGIS_Installation#Translating_Table_names_to_corresponding_States* Added more GISUniversity of Southern California case -information find a way to match University of Southern California first (functions, realm & outliers to considermore specific ones first)** http://mcnair.bakerinstitute.org/wiki/Urban_Start-up_Agglomeration#GIS_Resources* Visualization in PostGIS or connecting but how to ArcGIS for visualization (import/export data)* Spatial indexing:** http://revenant.ca/www/postgis/workshop/indexing.htmlgeneralize
...====10/2/2017 MONDAY ''4PM-6PM''====03-27:* Talked Writing code for university matches - decided to Harrison & Peter regarding ArcGIS** Currently have points plotted on Houston** Trouble interpreting geometry type, as currently reads in from text file** Documents located go through keys instead of each dataitem. Use keywords in : E:\McNair\Projects\Agglomeration\HarrisonPeterWorkArcGIS* Attempted each key to install PostGIS spatial extention from PostgreSQL but getting 'spatial database creation failed' error message.** Referenced instructions: *** https://www.gpsfiledepot.com/tutorials/installinggo through the dataitem -and-setting-up-postgresql-with-postgis/*** http://www.bostongis.com/PrinterFriendlymisspellings are currently unaccounted for.aspx?content_name=postgis_tut01
====10/3/2017 TUESDAY ''10AM-12PM 03-24:* Discussed with Julia & 1PM-2Meghana about university keys to use to count # of occurrences, including aliases and misspellings* Thoughts:30PMto use a scoring metric with a key of UNIVERSITY OF CALIFORNIA SYSTEM, it should have a 'better'====score when compared to MATHEMATICAL SCIENCES PUBLISHERS C/O UNIVERSITY OF CALIFORNIA BERKELEY or CALIFORNIA AT LOS ANGELES, UNVIERSITY OF than when compared to UNIVERSITY OF SOUTHERN CALIFORNIA, which may pose a challenge when attempting to implement this in a more general sense. In normalizing a string, strip "THE", "," and split words by spaces and compare each keyword from the two strings. Deciding on which strings to compare will be another issue - length (within some range maybe) could be an option. * Installed PostGIS & is now visible on pgAdmin IIIFederal Grant Data XML Parser was rerun - same output textfiles
* ArcGIS (connect to postgis database)2017-03-22:** 1) Open ArcMapRead string matching & calculating distance, below are relevant links** 2) Either open blank or open existing file[http://www.cs.cmu.edu/~wcohen/postscript/project** 3) Click on 'Add Data' button with a cross and a yellow diamond (under Selection toolbar)** 4) Go to the topijcai-most directory by pressing on the arrow that points leftws-then-up (on the left of home button)** 5) Click on 'Database Connections'** 6) Click on 'Add Database Connection' (if Connection to localhost2003.sde) does not exist already)pdf]** 7) Fill in the following fields[http:*** Database Platform//web.archive.org/web/20081224234350/http: PostgreSQL*** Instance: localhost*** User name: postgres*** Password: *** Database: tigertest** 8) Press 'OK'** 9) Now you'll have 'Connection to localhost//www.dcs.sde' in your Database Connections** 10) Double click on 'Connection to localhostshef.sde'** 11) Double click on the table of interest** 12) Click 'Finish'** 13) You'll see information populated on map, as one of the 'Layers'*** Tested with: tigertestac.publicuk/~sam/stringmetrics.copointplacescontainshtml]
====10/9/2017 MONDAY''3PM-6PM''====* TODO'S03-16:** Downloading data onto tigertestFurther documented [[University Patent Matching]]*** Road*** Railway*** Coastline*** Instructions: http://mcnair.bakerinstitute.org/wiki/PostGIS_Installation#Bulk_Download_TIGER_Shapefiles** Configure census data from American Community Survey (ACS)*** 1) Work out what data is of our interest (confirm ACS)*** 2) Determine appropriate shape file unit: **** census block vs. census block group vs. census track*** 3) Load into tigertestFinished writing XML Parser
* Done2017-03-15:** Downloaded data from httpsTodo:write a wikipage on possible input//www.census.gov/cgi-bin/geo/shapefiles/index.php tl_2017_us_coastline -- 4209 tl_2017_us_primaryroads -- 11574 tl_2017_us_rails -- 176237output info on string matcher** Link found to potentially download ACS Wrote part of XML parser, extracted yearly datainto E: https://www.census.gov/geo/maps-data/data/tiger-data.html*** But most files on it come with .gdb extension and not .shp\McNair\Projects\Federal Grant Data\NSF\NSF Extracted Data (up to year 2010)
====10/10/2017 TUESDAY''9AM-12PM''====03-14:*Discoveries/ Struggles regarding.gdb Started pulling academy cases but there are too many cases to worry about, in terms of institution of interest.shp file conversionA document is located in E:\McNair\Projects\University Patents\academies_verify_cases.txt** Esri Production Mapping (costly)*** License needs Need Julia/Meghana to be purchasesd: http://wwwlook through the hits and see which are relevant & extract pattern from there.esri.com/software/arcgis/extensions/production-mapping/pricing** Use ogr2ogr from gdal package*** https://gisHaving trouble outputting txt file without double quotes around every line.stackexchange.com/questions/14432/migrating-geodatabase-data-into-postgis-without-esri-apps*** Command: ogr2ogr Thinking that one text file should be output for all keywords instead of having one each, to avoid overlap (ex) COLLEGE and UNIVERSITY are both keywords; ALBERT EINSTEIN COLLEGE OF YESHIVA UNIVERSITY will be hit twice if it were counted as two separate instances, one accounting for COLLEGE and the other for UNIVERSITY) -f "ESRI Shapefile" [Destination either in the form of shapefile] [path to gdb file]*** Problem installing gdalif-elseif statements or one big regex check.
====10/16/2017 MONDAY''4PM-6PM''====03-13:* Exported maps of points from the Bay Area each year. ** Map used locationFor University Patent Data Matching - matched SCHOOL (output: E:\McNair\Projects\AgglomerationUniversity Patents\HarrisonPeterWorkArcGIS\Jeemin_Bay_Area Points_Every_Year\BayAreaEveryYearMap** Zoom scaleschool_pulled_from_assignee_list_USA) and matched INSTITUTE(output: 1:650.000* Location of Bay Area Points png files: E:\McNair\Projects\AgglomerationUniversity Patents\HarrisonPeterWorkArcGIS\Jeemin_Bay_Area Points_Every_Yearinstitute_pulled_from_assignee_list_USA). * [[University Patent Matching]] * To be worked on later: Grant XML parsing & general name matcher
====10/23/2017 MONDAY''4PM-6PM''====03-06:* Talked [[Installing python in a database]]* Added building Python function section to Ed [[Working with Peter & Oliver about upcoming tasks & projectsPostgreSQL]] at the bottom of the page.* Ran FDA Trial data ripping again, as the text output files were wiped.* Loaded acs_place table 2017 (does not contain population) Plan on tigertestdiscussing with Julia and Meghana again about pulling universities and other relevant institutions from the Assignee List USA.** SQL commands used:Talked to Sonia about pulling city, state, zipcode information, hence python was installed in a database. Will work with Sonia on Wednesday afternoon and see how best a regex function could be implemented
DROP TABLE acs_place;2017-03-03:* Attempted to output sql tables
CREATE TABLE acs_place (2017-03-01: USPS varchar(5), GEOID varchar(30), ANSICODE varchar(30), NAME varchar(100), LSAD varchar(30), FUNCSTAT varchar(10), ALAND varchar(30), AWATER varchar(30), ALAND_SQMI varchar(30), AWATER_SQMI varchar(30), INTPTLAT varchar(30), INTPTLONG varchar(30) );* Started re-running Jeemin_FDATrial_as_key_data_ripping.py
\COPY acs_place FROM '/bulk/2017_Gaz_place_national2017-02-27:* Finished producing tables from Jeemin_FDATrial_as_key_data_ripping.txt';py * Talked to Julia about LinkedIn data extracting -to be discussed further with Julia & Peter.* Started web crawler for Wikipedia -COPY 29578currently pulls Endowment, Academic staff, students, undergraduates, and postgraduates info found on Rice Wikipedia page. Can be found in : E:\McNair\Projects\University Patents\Jeemin_University_wikipedia_crawler.py
* TODO2017-02-24:** Find acs place 2016 data for population** Find larger acs filesContinued working on producing multiple tables - first two are done. Was working on location, ideally at the place level** Provide more documentation on POSTGIS & geocodingas there are multiple location tags per location.
====10/30/2017 MONDAY''4PM-6PM''====02-20:* Downloaded data from ACS, Continued working on Jeemin_FDATrial_as_key_data_ripping.py to be continued* File path: E:\McNair\Projects\Agglomeration\ACS_Downloaded_Data* Fields find tags and place all of those information in a list. The other zipcode file did not finish executing after 2+ hours of interest: S1401 SCHOOL ENROLLMENT S1501 EDUCATIONAL ATTAINMENT S2301 EMPLOYMENT STATUS B01003 TOTAL POPULATION B02001 RACE B07201 GEOGRAPHICAL MOBILITY B08303 TRAVEL TIME TO WORK B19013 MEDIAN HOUSEHOLD INCOME B19053 SELFrunning it -EMPLOYMENT INCOME IN THE PAST 12 MONTHS FOR HOUSEHOLDS B19083 GINI INDEX OF INCOME INEQUALITY B25003 TENURE B25105 MEDIAN MONTHLY HOUSING COSTS B28011 INTERNET SUBSCRIPTIONS IN HOUSEHOLD G001 GEOGRAPHIC IDENTIFIERSconsidering the possibility of splitting the record file into smaller bits, or running the processing on a faster machine.
====10/31/2017 TUESDAY''9AM-12PM''====02-17:* Finished doanloading Completed code for counting the number of occurrences for each unique zipcode. (currently titled & located: E:\McNair\Projects\FDA Trials\Jeemin_Project\Jeemin_Running_File.py). It has been running for 20+min because of the comprehensive XML data files from ACS.* Started loading tables into tigertestMeanwhile started coding to create a dictionary with the keys corresponding to each unique trial ID, mapped to every other information (location, sponsors, phase, drugs ...etc.* Commands run could be found in ) (currently titled & located: E:\McNair\Projects\AgglomerationFDA Trials\ACS_Downloaded_DataJeemin_Project\DataLoading_SQL_CommandsJeemin_FDATrial_as_key_data_ripping.py).txt ====11/07/2017 TUESDAY''9AM-12PM''====
Id Id2 Geography2017-02-13: Total; Estimate; Population 25 years and over Total; Estimate; Population 25 years and over - High school graduate * Goals (includes equivalencyfor trials) Total; Margin of Error; Population 25 years and over - High school graduate (includes equivalency: 1) Total; Margin of Error; Population 25 years and over - High school graduate (includes equivalencyBuild ER Diagram 2) Percent; Margin of Error; Population 25 years and over - High school graduate (includes equivalencyFor each entity, get XML snippet 3) Total; Estimate; Population 25 years and over - Associate's degree Total; Margin of Error; Population 25 years and over - Associate's degree Percent; Estimate; Population 25 years and over - Associate's degree Percent; Margin of Error; Population 25 years and over - Associate's degree Total; Estimate; Population 25 years and over - Bachelor's degree Total; Margin of Error; Population 25 years and over - Bachelor's degree Percent; Estimate; Population 25 years and over - Bachelor's degree Percent; Margin of Error; Population 25 years and over - Bachelor's degree Total; Estimate; Population 25 years and over - Graduate or professional degree Total; Margin of Error; Population 25 years and over - Graduate or professional degree Percent; Estimate; Population 25 years and over - Graduate or professional degree Percent; Margin of Error; Population 25 years and over - Graduate or professional degree Percent; Estimate; Percent high school graduate or higher Percent; Margin of Error; Percent high school graduate or higher Percent; Estimate; Percent bachelor's degree or higher Percent; Margin of ErrorBuild a parser/ripper for single file; Percent bachelor's degree or higherthe python parser can be found at: E:\McNair\Projects\FDA Trials\Jeemin_Project
*Complications2017-02-08:**For csv files corresponding Attempted to years 2015 & 2016, all come up with possible cases for locating the description of accelerators - pick up from extracting bodies of text from the above columns exist.**For csv files corresponding to years 2005 - 2014, no 'Percent' columns existabout page (given that it exists)*** Instead their 'Total' columns are percentage values**For csv file corresponding to year 2005, columns regarding Graduate or professional degree are labeled differently.[[Trial Data Project]]
*Temporary Solution2017-02-06:*Set up wikiPage & remote desktop. *Since the above problems may Started working on python version of web crawler. So far it successfully prints out a catchphrase/ description for one website. To be specific to this set of tables, will go through csv files and adjust columnsworked on. The python file can be found in: E:\McNair\Projects\Accelerators\Python WebCrawler\webcrawlerpython.py
*Python script location:
E:\McNair\Projects\Agglomeration\ACS_Downloaded_Data\pullCertainColumns.py
no edit summary
[[Jeemin Sim]] [[Work Logs]] [[Jeemin Sim (WorkLog)|(log page)]] ===Spring 2018=2/6/==2017 MONDAY ''2PM-6PM''01-11:*Was briefed on [[Urban Start-up Agglomeration and Venture Capital Investment]]*Going forward - running regressions in R in PostgreSQL and with desired layers (instead of levels) ===Fall 2017=== <onlyinclude> 2017-12-05:* Uploaded tables with KML files in TIF folder in bulk(E:) drive** Allegheny County** Atlanta** Chicago** Columbus, OH** Set up wikiPage & remote desktopDublin, OH** Vermont** Washington, D.C. * Started working on python version of web crawlerUpdated documentation for: ** http://www.edegan. So far it successfully prints out a catchphrasecom/wiki/ description TIF_Project#Uploading_TIF_Data_onto_database_.28tigertest.29 * shp2pgsql needs to be installed to upload Shapefiles to PostgreSQL database** applies for one websiteHouston, TX and Dallas, TX** DONE 2017-12-04:* To upload KML file into database with specified table name: researcher@McNairDBServ:/bulk/tigertest$ ogr2ogr -f PostgreSQL PG:"dbname=tigertest" chicagotif.kml -nln chicagotif* chicagotif table now resides in tigertest database 2017-11-30:* Displayed map with TIF districts and startups* Location: E:\McNair\Projects\Agglomeration\TIF\McNair_Color_Chicago_TIF_and_startups. To be worked onpng* Added information and steps to ArcMap/ArcGIS documentation page* Create a project page for 'Working with POSTGIS' and add instructions for uploading KML file onto POSTGIS** Command used : *** Logged in as : researcher@McNairDBServ /bulk/tigertest$ ogr2ogr -f PostgreSQL PG:"dbname=tigertest" chicagotif. The python kml * chicago TIF kml file currently downloaded in tigertest with a table name of Layer0** Figure out how to change layer name while loading kml file can be found ** Instructions pulled from : http://wiki.wildsong.biz/index.php/Loading_data_into_PostGIS#Loading_data_from_KMZ_files 2017-11-28:* Created and edited [[ArcMap / ArcGIS Documentation]]* Plotted points for TIFS and Startups in Chicago inone map.** Location: E:\McNair\Projects\AcceleratorsAgglomeration\Python WebCrawlerTIF\webcrawlerpythonJeemin_Chicago_TIF_and_Startups_Attempt1* Used https://mygeodata.cloud/result to convert from KML file to CSV (which was then saved as txt file to be uploaded onto ArcMap)* Text files located in Local Disk (C:) Drive 2017-11-27:*Download Chicago TIF data 2017-11-13:* 2017-11-09: * Notes on data downloaded:** Year 2010-2012 data are based on total population, not 25 yrs or over (case for all other tables)*** Record appears five times total, with same exact column name***For exmaple: 'Total; Estimate; High school graduate (includes equivalency)' appears five times, with different values.* TODO:** Make Projects page for ACS Data***[[American Community Survey (ACS) Data]] 2017-11-07:*Yesterday, narrowed down columns of interest from ACS_S1501_educationattain_2016 table.py
* psql table formula:Discussed the need to maintain venture capital database.
* Useful functions for spatial joins:
* Continue reading from: http://workshops.boundlessgeo.com/postgis-intro/geography.html
2017-04-17:* Continue reading fromTo pull accelerators: Wrote simple python regex-based script that ran on organizations data. Code: httpsE://postgis\McNair\Projects\Accelerators\Crunchbase Snapshot\accelerator keywords.net/docs/postgis_installation.htmlpy Matched output (885 mathces) : E:\McNair\Projects\Accelerators\Crunchbase Snapshot\Jeemin_885_accel_matches
2017-04-12:* To add documentation Finishing up cleaning the columns for Federal Grant Data - NIH. The output excel files can be accessed at: ** http E://mcnair.bakerinstitute.org/wiki/PostGIS_Installation\McNair\Projects\Federal Grant Data\NIH\Grants ** http Titled://mcnair Jeemin_combined_files 1986-2001.bakerinstitutecsv Jeemin_combined_files 2002-2012.org/wiki/Urban_Startcsv Jeemin_combined_files 2013-up_Agglomeration2015.csv
* Discussed the need to maintain venture capital database.psql table formula:
2017-03-22:* On running & altering OliverTalked to Julia about universal matcher, want to combine all University of California's script: to University of California, The Regents of** Location: E:\McNair\Projects\OliverLovesCircles\src\python\vc_circles.py** Ed manipulated file names so that underscores would replace dots (St.Louis Converted crunchbase2013 data from mySQL to PostgreSQL, but having trouble with the last table -cb_relationships, complains about syntax error at or near some places -> St_Louis)** Takes in instances and sweep times as part of the argument, but not impactful as those variables are hardcoded generally all tables exist in the scriptdatabase called crunchbase** Ran vc_circles.py with Federal Grant Data XML Parser was run - the following variables with changed values:*** SWEEP_CYCLE_SECONDS = 10 (used to be 30)*** NUMBER_INSTANCES = 16 (used to be 8)** New three output to textfiles can be found in: E:\McNair\Projects\OliverLovesCirclesFederal Grant Data\outNSF
2017-03-08:* Wrote regex pattern that identifies all "university" matchings - can be found in E:\McNair\Projects\University Patents\university_pulled_from_assignee_list_USA -- is an output file* Talked to Sonia, but didn't come to solid conclusion on identifying whether key words associate with city or country by running a python function* Output sql tables from finished run of Jeemin_FDATrial_as_key_data_ripping.py * Ran through assigneelist_USA.txt to see how many different ways UNIVERSITY could be spelled wrong.There were many.* Tried to logic through creating a pattern that could catch all different versions of UNIVERSITY. Discuss further on whether UNIVERSITIES and those that include UNIVERSITIES but include INC in the end should be pulled as relevant information
2017-02-22:* Finished Jeemin_FDATrial_as_key_data_ripping.py (E:\McNair\Projects\FDA Trials\Jeemin_Project\Jeemin_FDATrial_as_key_data_ripping.py), which outputs to E:\McNair\Projects\FDA Trials\Jeemin_Project\general_data_ripping_output.txt; TODO: output four different tables & replace the write in the same for-loop as going through each file
2017-02-15:*YesterdayDiscussed with Catherine what to do with FDA Trial data and decided to have a dictionary with zip-codes as keys and number of trials occurred in that zipcode as values. Was still attempting to loop through the files without the code having to exist in the same directory as the XML files. Plan to write to excel via tsv, narrowed down columns with zip-code as one column and # of interest from ACS_S1501_educationattain_2016 tableoccurrence as the other.
[[Category:Work Log]]
