[Bioperl-pipeline] Need help on installing the BioPipe 1

[Jia, Shuang]

Hey, everyone:

I am installing the BioPipe in our system, I experienced some problems.
Could anyone help me out?

*	Follow the /biosql-schema/README, I should run '$
scripts/transform_sql -target pg biosqldb-mysql.sql > biosqldb-pg.sql'. I
changed biosqldb-mysql.sql to biopipelinedb-mysql.sql, whole command changed
to '$ scripts/transform_sql -target pg biopipelinedb-mysql.sql>
biopipelinedb-mysql.sql'. The system said "no biopipelinedb-mysql.sql such
file". How could I run this for the biopipeline?

*	Follow the /bioperl-pipeline/INSTALL, I should populate the database
with the schema from the biosql-schema cvs modules: mysql -u root biopipe <
../biosql-schema/sql/biopipelinedb-mysql.sql. The system said 'bash:
../biosql-schema/sql/biopipelinedb-mysql.sql: No such file or directory'.

I think this two problem is the same one, could someone tell me how to do
it? Thanks very much.

Another one is:
*	After I installed bioperl-db, I tried to run test. I got the
following message:
	Run test as the root user:
	[root@jupiter bioperl-db]# make test_dblink
	PERL_DL_NONLAZY=1 /usr/bin/perl -Iblib/arch -Iblib/lib
-I/usr/lib/perl5/5.8.0/i386-linux-thread-multi -I/usr/lib/perl5/5.8.0 -e
'use Test::Harness qw(&runtests
	$verbose); $verbose=0; runtests @ARGV;' t/dblink.t
	t/dblink....driver not set at t/DBTestHarness.pm line 106
	        DBTestHarness::driver('DBTestHarness=HASH(0x804c0c0)')
called at t/DBTestHarness.pm line 204
	        DBTestHarness::create_db('DBTestHarness=HASH(0x804c0c0)')
called at t/DBTestHarness.pm line 94
	        DBTestHarness::new('DBTestHarness','biosql') called at
t/dblink.t line 21
	t/dblink....dubious
	        Test returned status 255 (wstat 65280, 0xff00)
	DIED. FAILED tests 1-18
	        Failed 18/18 tests, 0.00% okay
	Failed Test Stat Wstat Total Fail  Failed  List of Failed
	
----------------------------------------------------------------------------
---
	t/dblink.t   255 65280    18   18 100.00%  1-18
	Failed 1/1 test scripts, 0.00% okay. 18/18 subtests failed, 0.00%
okay.
	make: *** [test_dblink] Error 2

	Change user to myself:
	[sjia@jupiter bioperl-db]$ make test_dblink
	PERL_DL_NONLAZY=1 /usr/bin/perl -Iblib/arch -Iblib/lib
-I/usr/lib/perl5/5.8.0/i386-linux-thread-multi -I/usr/lib/perl5/5.8.0 -e
'use Test::Harness qw(&runtests
	$verbose); $verbose=0; runtests @ARGV;' t/dblink.t
	No -I allowed while running setuid.
	make: *** [test_dblink] Error 29



Shuang