Difference between revisions of "Msaeedi23 Week 6"

Revision as of 04:22, 15 October 2015

Table Creation on PostgreSQL

Start by logging into ssh & enter password

ssh <msaeedi@my.cs.lmu.edu>

Then I inputted:

ls To show the files in the directory that we want to use.

In PostgreSQL I typed the following to create an "application" table:

create table application (ApplNo int primary key, ApplType varchar, 
SponsorApplicant varchar, MostRecentLabelFlag boolean, CurrentPatentFlag boolean, 
ActionType varchar, ChemicalType int, Ther_Potential varchar, OrphanCode varchar);

Using similar techniques I typed in the following command into PostgreSQL to create the "Product" table:

create table product (ApplNo int references application, ProductNo int, Form varchar,
Dosage varchar, ProductMktStatus int, TECode varchar, ReferenceDrug int,
drugname varchar, activeingred varchar);

Formatting application.txt

I removed the spaces using the regex for the tab character which was \t. Redirected the processed data and formatted the original lines using:

cat application.txt | sed "1D" | sed "s/\t/,'/" | sed "s/\t/','/" | sed "s/\t/',/" | sed "s/\t/,/" | sed "s/\t/,'/" | 
sed "s/\t/',/" | sed "s/\t/,'/" | sed "s/\t/'/" | sed "s/,,/,null,/g"

Following this command it was necessary to remove excess spaces:

cat application.txt | sed "1D" | sed "s/\t/,'/" | sed "s/\t/','/" | sed "s/\t/',/" | sed "s/\t/,/" | sed "s/\t/,'/" | 
sed "s/\t/',/" | sed "s/\t/,'/" | sed "s/\t/'/" | sed "s/,,/,null,/g" | sed "s/   *//g"

Then I targeted the V at the end of every line, if there was one there I put it in quotes, if not I added a null:

cat application.txt | sed "1D" | sed "s/\t/,'/" | sed "s/\t/','/" | sed "s/\t/',/" | sed "s/\t/,/" | sed "s/\t/,'/" | 
sed "s/\t/',/" | sed "s/\t/,'/" | sed "s/\t/'/" | sed "s/,,/,null,/g" | sed "s/   *//g" | sed "s/V\r$/,'V'/g"

Lastly I added null to the end of each line, and replaced the empty characters -"- with null as well:

cat application.txt | sed "1D" | sed "s/\t/,'/" | sed "s/\t/','/" | sed "s/\t/',/" | sed "s/\t/,/" | sed "s/\t/,'/" | 
sed "s/\t/',/" | sed "s/\t/,'/" | sed "s/\t/'/" | sed "s/,,/,null,/g" | sed "s/   *//g" | sed "s/V\r$/,'V'/g" | sed "s/\r$/,null/g" | sed "s/,'V',null/,'V'/g" | sed "s/,,/,null,/g"

Finally, we pipe it all into the application.sql.txt file:

cat application.txt | sed "1D" | sed "s/\t/,'/" | sed "s/\t/','/" | sed "s/\t/',/" | sed "s/\t/,/" | sed "s/\t/,'/" | 
sed "s/\t/',/" | sed "s/\t/,'/" | sed "s/\t/'/" | sed "s/,,/,null,/g" | sed "s/   *//g" | sed "s/V\r$/,'V'/g" | sed "s/\r$/,null/g" | sed "s/,'V',null/,'V'/g" | sed "s/,,/,null,/g" | sed "s/^/insert into 
application(ApplNo,ApplType,SponsorApplicant,MostRecentLabelAvailableFlag, CurrentPatentFlag,ActionType,ChemicalType,Ther_Potential,Orphan_Code) values(/g" | sed "1d"  > ~/public_html/application.sql.txt\

Formatting product.txt

This was much easier to do after formatting the application.txt due to the fact that I looked over the data prior to processing it:
cat Product.txt | 
sed "1D" | 
sed "s/'//g"| 
sed "s/\t/,/" | 
sed "s/\t/,'/" | 
sed "s/\t/','/" | 
sed "s/\t/',/" | 
sed "s/\t/,'/" | 
sed "s/\t/',/" | 
sed "s/\t/,'/" | 
sed "s/\t/','/" | 
sed "s/\r$/'/g" | 
sed "s/,,/,null,/g" | 
Finally we pipe it all into the product.sql.txt file:
sed "s/^/insert into product(ApplNo,ProductNo,Form,Dosage,ProductMktStatus,TECode,
ReferenceDrug,drugname,activeingred) values(/g" > ~/public_html/Product.sql.txt

Questions to Answer

1. Provide the DDL (create table) statements that you used for your application and product tables.

application.txt

create table application (ApplNo int primary key, ApplType varchar, 
SponsorApplicant varchar, MostRecentLabelFlag boolean, CurrentPatentFlag boolean, 
ActionType varchar, ChemicalType int, Ther_Potential varchar, OrphanCode varchar);

product.txt

create table product (ApplNo int references application, ProductNo int, Form varchar,
Dosage varchar, ProductMktStatus int, TECode varchar, ReferenceDrug int,
drugname varchar, activeingred varchar);

1. Provide the sed command sequences that you used to convert the raw text files into sequences of SQL insert statements.

application.txt

cat application.txt | sed "1D" | sed "s/\t/,'/" | sed "s/\t/','/" | sed "s/\t/',/" | sed "s/\t/,/" | sed "s/\t/,'/" | sed "s/\t/',/" | sed "s/\t/,'/" | sed "s/\t/'/" | sed "s/,,/,null,/g" | sed "s/   *//g" | sed "s/V\r$/,'V'/g" | sed "s/\r$/,null/g" |  sed  "s/,'V',null/,'V'/g" | sed "s/,,/,null,/g" | sed "s/^/insert into 
application(ApplNo,ApplType,SponsorApplicant,MostRecentLabelAvailableFlag, CurrentPatentFlag,ActionType,ChemicalType,Ther_Potential,Orphan_Code) values(/g" | sed "1d"  > ~/public_html/application.sql.txt\

product.txt

1. • cat Product.txt | sed "1D" | sed "s/'//g"| sed "s/\t/,/" | sed "s/\t/,'/" | sed "s/\t/','/" | sed "s/\t/',/" | sed "s/\t/,'/" | sed "s/\t/',/" | sed "s/\t/,'/" | sed "s/\t/','/" | sed "s/\r$/'/g" | sed "s/,,/,null,/g" | sed "s/^/insert into product(ApplNo,ProductNo,Form,Dosage,ProductMktStatus,TECode,

ReferenceDrug,drugname,activeingred) values(/g" > ~/public_html/Product.sql.txt

1. Using the command line, how can you determine the number of records in each file? Provide the command.
2. Using SQL, how can you determine the number of records in the table corresponding to the file? Provide the SQL select statement.
3. In your database, are these numbers the same or different? Explain why you think so.

   For the remaining questions, supply (a) the answer to the question and (b) the SQL statement that you used to answer the question.

4. What are the names of the drug products that are administered in the form INJECTABLE;INTRAVENOUS, SUBCUTANEOUS?
5. What are the names of the drug products whose active ingredient (activeingred) is ATROPINE?
6. In what forms and dosages can the drug product named BENADRYL be administered?
7. Which drug products have a name ending in ESTROL?
8. Produce a table listing all of the known values for the therapeutic_potential column in the application table and how many application records there are of each. (Side note: The therapeutic_potential codes are explained in the ReviewClass_Lookup.txt file, in case you’re interested.)
9. Produce a table listing all of the known values for the chemical_type column in the application table and how many application records there are of each. (Side note: The chemical_type codes are explained in the ChemTypeLookup.txt file, in case you’re interested.)
10. What are the names of the drug products that are sponsored (sponsor applicant column) by MERCK?
11. Which sponsor applicant companies have the text LABS in their names and have products whose active ingredients (activeingred) include both ASPIRIN and CAFFEINE?