bioroot.oligo
Class OligoBase

java.lang.Object
  javax.servlet.GenericServlet
      javax.servlet.http.HttpServlet
          bioroot.oligo.OligoBase

All Implemented Interfaces:

java.io.Serializable, javax.servlet.Servlet, javax.servlet.ServletConfig

public class OligoBase

extends javax.servlet.http.HttpServlet

Author:

nix Simple Oligo page, should use jsp. Contains static methods for oligos

See Also:

Serialized Form

Field Summary

static Enzyme[]	ENZYMES
static java.lang.String[]	searchHeadings Use to make a hash of column heading in which to search, name then the actual search column name.
static java.lang.String[]	stringFeatures Use to make a default oligo Feature[].

Constructor Summary

OligoBase()

Method Summary

void	doGet(javax.servlet.http.HttpServletRequest request, javax.servlet.http.HttpServletResponse response)
void	doPost(javax.servlet.http.HttpServletRequest request, javax.servlet.http.HttpServletResponse response)
static java.lang.String	fetchConcentrationGroup(OligoBean ob) Returns a concentration unit
static java.lang.String	getOligoForm(OligoBean ob, DBUtil bioRoot, UserBean userBean) Returns an oligo form filled it with the values in the oligo bean.
static java.lang.String	getOligoReport(OligoBean ob, DBUtil bioRoot, UserBean userBean, boolean commonForm) Returns an oligo report.
static java.lang.String[]	getSearchColumnNames() Returns a list of the search column names used in an SQL statment , ie Oligo.name, 1/2 the searchHash.
static java.util.LinkedHashMap	getSearchHash()
static java.lang.String[]	getSearchNames()
static OligoBean[]	reverseOligoBeans(OligoBean[] beans) Reverses the order of an array of OligoBean.

Methods inherited from class javax.servlet.http.HttpServlet

service

Methods inherited from class javax.servlet.GenericServlet

destroy, getInitParameter, getInitParameterNames, getServletConfig, getServletContext, getServletInfo, getServletName, init, init, log, log

Methods inherited from class java.lang.Object

equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

ENZYMES

public static final Enzyme[] ENZYMES

stringFeatures

public static java.lang.String[] stringFeatures

Use to make a default oligo Feature[]. Watch order of trues, must be on top

searchHeadings

public static final java.lang.String[] searchHeadings

Use to make a hash of column heading in which to search, name then the actual search column name.

Constructor Detail

OligoBase

public OligoBase()

Method Detail

getSearchHash

public static java.util.LinkedHashMap getSearchHash()

getSearchNames

public static java.lang.String[] getSearchNames()

getSearchColumnNames

public static java.lang.String[] getSearchColumnNames()

Returns a list of the search column names used in an SQL statment , ie Oligo.name, 1/2 the searchHash.

doGet

public void doGet(javax.servlet.http.HttpServletRequest request,
                  javax.servlet.http.HttpServletResponse response)
           throws javax.servlet.ServletException,
                  java.io.IOException

Throws:

javax.servlet.ServletException

java.io.IOException

doPost

public void doPost(javax.servlet.http.HttpServletRequest request,
                   javax.servlet.http.HttpServletResponse response)
            throws javax.servlet.ServletException,
                   java.io.IOException

Throws:

javax.servlet.ServletException

java.io.IOException

reverseOligoBeans

public static OligoBean[] reverseOligoBeans(OligoBean[] beans)

Reverses the order of an array of OligoBean.

getOligoReport

public static java.lang.String getOligoReport(OligoBean ob,
                                              DBUtil bioRoot,
                                              UserBean userBean,
                                              boolean commonForm)

Returns an oligo report.

getOligoForm

public static java.lang.String getOligoForm(OligoBean ob,
                                            DBUtil bioRoot,
                                            UserBean userBean)

Returns an oligo form filled it with the values in the oligo bean. Must add a form entry. ie + "

" and start and stop HTML stuff

fetchConcentrationGroup

public static java.lang.String fetchConcentrationGroup(OligoBean ob)

Returns a concentration unit