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Release Notes for
ENTERPRISE BIOLOGY SOFTWARE 2009 (Version 9.0)
© Copyright 2001 - 2010 Robert P. Bolender and
Licensors
All rights reserved.
******************************************************************
Description of the Software
The Enterprise Biology Software (EBS 2009; Version
9.0) includes:
-
Systems Biology Two (1.0)
-
Information Interface (1.0)
-
Database Upgrades (2009)
-
Stereology Literature Database
-
Universal Biology Database
Before
you begin, you need:
|
Software |
Enterprise Biology Software 2009; DVD |
|
DVD Drive |
To install the program |
|
Processor |
Recent Intel or AMD personal computer |
|
RAM |
500 MB
(minimum) – 1GB of memory (recommended) |
|
Disk space |
EBS Software Package 9.0; 412 MB of hard
disk space on the C drive |
|
OS |
Microsoft Windows 95, 98, 98SE, Me, 2000,
NT 4.0, XP, Vista, Windows7 |
|
Resolution |
1280 by 1024 pixels (right click desktop
Properties/Settings) |
|
Display Properties |
Appearance tab - set Scheme to Windows
Standard |
|
Color Depth |
High Color or True Color (recommended) |
|
Font Size |
Small |
Installation Overview
A relational database is installed in a
client/server configuration. The software uses a runtime database
engine (rtdsk50.exe) that connects a user interface to a backend
server. Many of the database programs employ a “query by example”
interface. During the installation, the client/server configuration
will be set up automatically on the target computer. The Uninstall
program removes all traces of the original installation.
Installation
Install the Universal Biology Database Software
(2009) from the DVD
-
Step 1: Put the EBS 2009 DVD in the
center ring (80 mm) ring of the DVD drive, close the door, and the
installation starts automatically. Run the installation program.
-
Step 2: Install Adobe Acrobat Reader
9.3. On the opening screen of the Universal Biology Database (main
menu), click on install reader. Follow the directions. If
Adobe Acrobat Reader 9.0 is already installed, this step can be
skipped.
Troubleshooting the installation
Since the installation is based on the Windows
Installer Program, it should be unremarkable.
-
Problems that do appear most likely will be the
result of not setting the resolution (1280 by 1024 pixels), color
(High Color or True Color), or font size (Small) as recommended.
-
The current resolution setting (1280 by 1024
pixels) may exceed that of your monitor and/or graphics card,
thereby obscuring command buttons. If so, click on the scroll
button – if present.
-
It is also a good idea during the installation
to have no open applications and no applications running in the
background (this includes anti-virus software, crash monitoring
software, and system diagnostic software).
Uninstall the Universal Biology Database
Software
-
Press the Start button on the toolbar;
select Programs, EBS 2009, and Uninstall EBS 2009. This is
the recommended procedure. Alternatively, the programs can be
removed from the control panel.
Running
the Enterprise Biology Software
Starting the Universal Biology Database program
Selecting programs
Technical
Issues
Program notes
-
The default paper size for printing is 8.5 x 14
inches (Legal).
-
A sort button (usually a radio button) often
has two functions (left mouse click = ascending; right mouse click =
descending or ascending + remove blanks)
-
Some of the programs are large and may require
long loading times, depending on the memory and operating system of
the client computer.
-
When a command button has a thick border, is
can be "clicked" by pressing the Enter key.
Known problems
-
The quality of the display depends importantly
on the recommended settings for resolution, color depth, and font
size. Most display problems can be fixed by following the
directions given above (See: Before you begin…).
-
Installing the new software (2009) changes the
ODBC setting for the main database. This may interfere with earlier
EBS programs using the same database. The fix is to reinstall the
older program.
-
If clicking on an accession number does not
automatically copy it to the data entry field during an Internet
search, highlight the number and use copy (hold down Ctrl press c)
and paste (hold down Ctrl press v).
-
Some computers running the Vista operating
system fail to display .pdf files when their buttons are clicked in
the EBS programs– even when the Adobe Reader is properly installed.
The work around is to find the files in the folder (C:\Program
Files\EBS 2009) and double click on them.
ENTERPRISE BIOLOGY SOFTWARE (9.0) 2009/10
|
Window Name (as it appears in on the screen) |
Program (.exe) or File (.pdf) |
Notes
|
SYSTEMS BIOLOGY TWO
|
UBD_2009.exe |
Enterprise Biology Software 2009/2010 |
|
1. Documents |
|
Progress reports |
|
2009 |
Paper10.pdf |
Progress report for 2009 |
|
2008 |
Paper9.pdf |
Progress report for 2008 |
|
2007 |
Paper8.pdf |
Progress report for 2007 |
|
2006 |
Paper7.pdf |
Progress report for 2006 |
|
2005 |
Paper6.pdf |
Progress report for 2005 |
|
2004 |
Paper5.pdf |
Progress report for 2004 |
|
2003 |
Paper4.pdf |
Progress report for 2003 |
|
2002 |
Paper3.pdf |
Progress report for 2002 |
|
2001B |
Paper2.pdf |
Progress report for 2001 |
|
2001A |
Paper1.pdf |
Progress report for 2001 |
|
Rule book |
Rulebook1.pdf |
Guidelines for a Quantitative Biology |
|
Forms |
Forms_1.pdf |
Data entry forms |
|
Read |
Read1.pdf |
Introduction / Help |
|
2.
Software Tree |
Info_infra.exe |
Information Infrastructure |
|
Stereology Literature Database |
|
|
|
Standardize Data |
|
|
|
·
Data Entry Tools |
|
|
|
Graphics to Numbers |
Graphics_toolhr.exe |
Convert graphs into numbers |
|
Hierarchy templates |
Ubd_sort_hierhr.exe |
View data input hierarchies |
|
·
Enter Data |
|
|
|
Citation |
Issb_cit.exe |
Enter citation data |
|
Citation List |
Sort_cit.exe |
Display list of citations |
|
Methods |
Issb_met.exe |
Enter methods data |
|
Control |
Issb_co.exe |
Enter control data |
|
Lookup Tables |
Issb_lookup.exe |
Lookup tables for data entry |
|
Print Citation |
Elec_e1hr.exe |
Standardized paper |
|
Experimental |
Issb_ex.exe |
Enter experimental data |
|
·
View Catalogues |
|
|
|
Citation |
Ubd_cit_listhr.exe |
Find papers by citation et cetera |
|
Citation by Data |
Ubd_ui5hr.exe |
Find papers by control data |
|
Citation by Method |
Ubd_ui3hr.exe |
Find papers by methods |
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Stereology Literature Database - Co |
Ubd_sldb_c.exe |
Catalogue of stereological data - Co |
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Stereology Literature Database - Ex |
Ubd_sldb_e.exe |
Catalogue of stereological data - Ex |
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Standardized paper - control |
Elec_c1hr.exe |
Standardized paper |
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Standardized paper - experimental |
Elec_e1hr.exe |
Standardized paper |
|
·
Query Data |
|
|
|
By Citation-Control |
Ubd_ui5hr.exe |
Find papers by control data |
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By Citation-Experimental |
Ubd_Bi6hr.exe |
Find papers by experimental data |
|
By Method |
Ubd_ui3hr.exe |
Find papers by methods |
|
Universal Biology Database |
|
|
|
·
Reformat Data |
|
|
|
Make Connections |
|
|
|
Enter Data Pairs-Control |
Dpair_in.exe |
Enter control data pairs |
|
Enter Data Pairs-Experimental |
Dpair_in_ex.exe |
Enter experimental data pairs |
|
View Connections |
|
|
|
Data Pair Library |
Ubd_ui77hr.exe |
View, sort, and filter data pairs |
|
Find Connections |
|
|
|
Query Data-Control |
Ubd_ui1hr.exe |
Find control patterns |
|
Query Data-Experimental |
Ubd_ui1ehr.exe |
Find experimental patterns |
|
Query Data-CO+EX |
Ubd_ui1cehr.exe |
Find control and experimental patterns |
|
Digital Libraries |
|
|
|
·
Change |
|
|
|
Steady State Change |
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|
|
Enter Data |
Ubd_ch_steadystate.exe |
Enter steady state data |
|
Query Data |
Query-steadystate.exe |
Query steady state data |
|
Transitional Change |
|
|
|
Enter Data |
Ubd_ch_transitional.exe |
Enter transitional data |
|
Query Data |
Query-transitional.exe |
Query transitional data |
|
·
Patterns |
|
|
|
Experiments as Equations |
|
|
|
Unfolding Complexity |
Opticaldensitymol.exe |
Simulator for experiments as equations |
|
Engineering |
Hippo.exe |
Reverse and forward |
|
Blueprint |
|
|
|
Enter Data |
Conrep.exe |
Enter blueprint data |
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View Data |
Conrep_outhr.exe |
View blueprint data |
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Query Data |
Ubd_core_out.exe |
Query blueprint data |
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Unintended Consequences |
|
|
|
Concentration Trap |
Da01_outhr.exe |
Explore pitfalls of concentration data |
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Systems Biology Two |
|
|
|
Folders |
|
Development, disease, exposure |
|
Documents |
|
|
|
EBS 2009 |
Ubd_2009.exe |
Software package for 2009 |
|
Reports |
Reports.exe |
2001 to present |
|
RuleBook |
RuleBook.exe |
Guidelines to a mathematical biology |
|
Forms/Templates |
Docsforms.exe |
Data entry tools |
|
3.
Set Up |
|
|
|
Install reader |
W_adobe_reader |
Install Adobe Reader |
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AdbeRdr90_en_US.exe |
Install reader for Adobe Acrobat 9.0 |
|
|
Microsoft WSE 3.0 Runtime.msi |
May be needed to install - Reader 9.0 |
|
|
dotnetfx.exe |
May be needed to install - WSE 3.0 |
|
|
WindowsInstaller-KB884016-v2-x86 |
May be needed to install - dotnetfx |
|
Installation |
Readme_install_2009.pdf |
Installation directions |
|
Read |
Read3.pdf |
Introduction / Help |
|
4.
Enter Data |
|
|
|
Citation |
Issb_cit.exe |
Enter citation data |
|
Methods |
Issb_met.exe |
Enter methods data |
|
Control |
Issb_co.exe |
Enter control data |
|
Experimental |
Issb_ex.exe |
Enter experimental data |
|
Enter Data Pairs - Co |
Dpair_in.exe |
Enter control data pairs |
|
Enter Data Pairs - Ex |
Dpair_in_ex.exe |
Enter experimental data pairs |
|
Enter Steady State Data |
Ubd_ch_steadystate.exe |
Enter steady state data |
|
Enter Transitional Data |
Ubd_ch_transitional.exe |
Enter transitional data |
|
Read |
Read4.pdf |
Introduction / Help |
|
5.
View Data |
|
|
|
Citation |
Ubd_cit_listhr.exe |
Find papers by citation et cetera |
|
Stereology Literature Database - Co |
Ubd_sldb_c.exe |
Catalogue of stereological data - Co |
|
Stereology Literature Database - Ex |
Ubd_sldb_e.exe |
Catalogue of stereological data - Ex |
|
Standardized paper - control |
Elec_c1hr.exe |
Standardized paper |
|
Standardized paper - experimental |
Elec_e1hr.exe |
Standardized paper |
|
Data Pair Library |
Ubd_ui77hr.exe |
View, sort, and filter data pairs |
|
Blueprint Data |
Conrep_outhr.exe |
View blueprint data |
|
Engineering |
Hippo.exe |
Reverse and forward |
|
Read |
Read5.pdf |
Introduction / Help |
|
6.
Query Data |
|
|
|
Citation-Control |
Ubd_ui5hr.exe |
Find papers by control data |
|
Citation-Experimental |
Ubd_bi6hr.exe |
Find papers by experimental data |
|
Method |
Ubd_ui3hr.exe |
Find papers by methods |
|
Proportion-Control |
Ubd_ui1hr.exe |
Find control patterns |
|
Proportion - Experimental |
Ubd_ui1ehr.exe |
Find experimental patterns |
|
Proportion - Co+Ex |
Ubd_ui1cehr.exe |
Find control and experimental patterns |
|
Blueprint |
Ubd_core_out.exe |
Query blueprint data |
|
Steady State |
Query-steadystate.exe |
Query steady state data |
|
Transitional |
Query-transitional.exe |
Query transitional data |
|
Read |
Read6.pdf |
Introduction / Help |
Files
|
|
|
Worksheet-Connection phenotype
|
Cp_worksheet.docx, .doc, .pdf |
Data entry worksheet |
Worksheet-Hierarchy
|
Hi_worksheet.docx, .doc, .pdf |
Hierarchy for data entry worksheet |
Worksheet-Data entry table
|
Data_worksheet.docx, .doc, .pdf |
Summary table for data entry worksheet |
|
Database Name |
Database (.db) |
Upgrades |
|
Biology Literature Databases |
Issb_pc.db; sysbio.db |
Stereology Literature, Universal Biology, and Systems Biology
Databases |
|
Systems Biology Two Database |
Sysbio.db; sysbio.ini |
·
Software Tree |
Credits
Development Platform
Viewer
-
The runtime reader Acrobat (9.0, 9.3) is made
available as a courtesy of Adobe Systems Incorporated, San Jose,
CA.
Disclaimer
The author makes no claims of usability, efficacy,
or warranty. The SOFTWARE LICENSE AGREEMENT completely defines the
licensed use of this software.
Information in this document is provided in
connection with this product. No license, express or implied, or
otherwise, to any intellectual property rights is granted by this
document. The author assumes no liability whatsoever, and disclaims any
express or implied warranty relating to use of this product, including
liability or warranties relating to fitness for a particular purpose,
infringement of any patent, copyright, or other intellectual property
right. The software is not intended for use in medical, life saving, or
life-sustaining applications.
The author disclaims all warranties and liabilities
for the use of this document and the information contained herein, and
assumes no responsibility for any errors that may appear in this
document or software package, nor does the author make a commitment to
update the information contained herein. The author reserves the right
to make changes to this document or software at any time, without
notice.
© Copyright 1994-1997 Robert P. Bolender and the
University of Washington
© Copyright 2001-2010 Robert P. Bolender and
Licensors
All rights reserved.
NOTICE
OF PROPRIETARY RIGHTS
The Enterprise Biology Software and documentation
are the property of Robert P. Bolender. Use, examination, reproduction,
copying, disassembly, decompilation, transfer to others, in whole or in
part, are strictly prohibited except the express prior written consent
of Robert P. Bolender.
readme_install_2009.pdf
May 15, 2010 |