I received an error upgrading a site from 5.6.0 to 5.6.1. The error i got said something about not being able to find the file httpdocs\\Install\Cleanup\04.07.00.txt

When i go to the upgrade log i find the following in the log:
System.Data.SqlClient.SqlException: There is already an object named 'GetAllUsers' in the database. 
at System.Data.SqlClient.SqlConnection. (SqlException exception, Boolean breakConnection) 
at System.Data.SqlClient.SqlInternalConnection. (SqlException exception, Boolean breakConnection) 
at System.Data.SqlClient.TdsParser.ThrowExceptionAndWarning(TdsParserStateObject stateObj) 
at System.Data.SqlClient.TdsParser.Run(RunBehavior runBehavior, SqlCommand cmdHandler, SqlDataReader dataStream, BulkCopySimpleResultSet bulkCopyHandler, TdsParserStateObject stateObj) 
at System.Data.SqlClient.SqlCommand.RunExecuteNonQueryTds(String methodName, Boolean async) 
at System.Data.SqlClient.SqlCommand.InternalExecuteNonQuery(DbAsyncResult result, String methodName, Boolean sendToPipe) 
at System.Data.SqlClient.SqlCommand.ExecuteNonQuery() 
at DotNetNuke.Data.SqlDataProvider.ExecuteADOScript(String SQL) 
at DotNetNuke.Data.SqlDataProvider.ExecuteScript(String Script, Boolean UseTransactions) 



CREATE PROCEDURE dbo.[GetAllUsers] 
@PortalID int, 
@PageIndex int, 
@PageSize int 

AS 
BEGIN 
-- Set the page bounds 
DECLARE 
@PageLowerBound INT, 
@PageUpperBound INT, 
@RowsToReturn int 

exec dbo.[CalculatePagingInformation] @PageIndex, @PageSize, @RowsToReturn output, @PageLowerBound output, @PageUpperBound output 

if @PortalID is null 
begin 
with [tmpUsers] as ( 
select U.*, row_number() over (order by U.UserName) AS rowid 
FROM dbo.vw_Users u 
where U.PortalID IS NULL AND U.IsDeleted = 0 
) 
select * from [tmpUsers] 
where rowid > @PageLowerBound and rowid < @PageUpperBound 
order by rowid 
end 
else 
begin 
with [tmpUsers] as ( 
select U.*, row_number() over (order by U.UserName) AS rowid 
FROM dbo.vw_Users u 
WHERE U.PortalID = @PortalID AND U.IsDeleted = 0 
) 
select * from [tmpUsers] 
where rowid > @PageLowerBound and rowid < @PageUpperBound 
order by rowid 
end 

set rowcount 0 

if @PortalId is null 
begin 
SELECT COUNT(*) as TotalRecords 
FROM dbo.Users as U 
WHERE U.IsDeleted = 0 
AND NOT EXISTS ( 
select 1 from dbo.UserPortals UP where U.UserId = UP.UserId 
) 
end 
else 
begin 
SELECT COUNT(*) as TotalRecords 
FROM dbo.Users U 
INNER JOIN dbo.UserPortals UP ON U.UserId = UP.UserId 
WHERE UP.PortalId = @PortalId 
AND UP.IsDeleted = 0 
end 
END

Any ideas on what happened? What can I do to fix it?

No, it doesn't look like the site is having issues. I've tried to do a variety of administrative tasks to make sure and everything seems to be working fine.