Difference between revisions of "Configuration Tool"
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The data architecture of the DNA Bank Network is based on the GBIF infrastructure. The basic principle of GBIF as well as of the DNA Bank Network is to record all data sets only once. Stored at only one place they can be used as a linked reference for different applications. | The data architecture of the DNA Bank Network is based on the GBIF infrastructure. The basic principle of GBIF as well as of the DNA Bank Network is to record all data sets only once. Stored at only one place they can be used as a linked reference for different applications. | ||
| − | Since many institutions joined GBIF applying different database structures each, the installation of wrappers has become a standard to combine different sources and integrate data easily into networks. There are three main wrapper softwares available BioCASE, DiGIR and TAPIR. All of them use an xml schema for data transfer: BioCASE - ABCD, DiGIR and TAPIR - DarwinCore(DwC). | + | Since many institutions joined GBIF applying different database structures each, the installation of wrappers has become a standard to combine different sources and integrate data easily into networks. There are three main wrapper softwares available BioCASE, DiGIR and TAPIR. All of them use an xml schema for data transfer: BioCASE - ABCD, DiGIR and TAPIR - DarwinCore (DwC). |
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| + | <div id="wikinote">To transfer DNA data into the webportal of the DNA Bank Network a DNA extension for ABCD, called http://www.dnabank-network.org/Extension.php|ABCDDNA has been developed. Thus BioCASE Provider Software is required. If your institution don't make use of BioCASe yet please follow the installation guide of BioCASe first. If your institition is using BioCASe already you can just add a further mapping. BioCASe can be used in parallel with other systems like DiGIR or TAPIR.</div> | ||
==Metadata for DNA data== | ==Metadata for DNA data== | ||
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http://www.biocase.org Webpage of the Biological Collection Access Servide (BioCASe)<br> | http://www.biocase.org Webpage of the Biological Collection Access Servide (BioCASe)<br> | ||
http://www.biocase.org/products/provider_software/index.shtml Download BioCASe Provider Software<br> | http://www.biocase.org/products/provider_software/index.shtml Download BioCASe Provider Software<br> | ||
| − | http://wiki.bgbm.org/bps/index.php/Main_Page BioCASe Provider Software - Wiki<br> | + | http://wiki.bgbm.org/bps/index.php/Main_Page BioCASe Provider Software - Wiki, Installation guide<br> |
http://www.bgbm.org/tdwg/codata/schema/ Access to Biological Collection Data (ABCD) <br> | http://www.bgbm.org/tdwg/codata/schema/ Access to Biological Collection Data (ABCD) <br> | ||
http://digir.net/prov/prov_manual.html Distributed Generic Information System (DiGIR)<br> | http://digir.net/prov/prov_manual.html Distributed Generic Information System (DiGIR)<br> | ||
Revision as of 10:51, 16 August 2011
Contents
Overview
Only members of group "Administrator" have full access to the Configuration Tool.
| Feature | Access |
|---|---|
| Database connection | Administrator |
| User Management | Administrator, Team |
| General settings | Administrator, Team |
| User defined settings | Administrator, Team, Project, Guest |
| Change own password | Administrator, Team, Project, Guest |
| Wrapper Configuration | Administrator |
Connection to DNA database
Only administrators are allowed to edit the database connection. The DNA Module can be used currently with MySQL only. Password of database user can be left empty if not assigned.
User Management
Members of group "Administrator" and "Team" are allowed to add or delete users and to edit user details. Furthermore the tool gives an overview how many DNA and specimen records a individual user has created .
An user can not be deleted if he/her has created records! You should change his/her group membership instead.
Add new user
For creating a new user please select "Add User" (see screenshot). You have to enter the email address of the new user, his/her real and login name and define his/her group membership. After creating the user will receive an email with an automatically generated password. Please make sure you have define SMTP parameters first!
Group overview
| Feature | Administrator | DNA Bank Team | Project | Guest |
|---|---|---|---|---|
| Access to Database configuration and mapping settings | Yes | No | No | No |
| Edit/Delete/Add Users | Yes | Yes | No | No |
| Add new records | Yes | Yes | Yes | No |
| Delete records | Yes | Yes | No | No |
| Read blocked records created by other users | Yes | Yes | Yes | No |
| Edit blocked records created by other users | Yes | Yes | No | No |
| Read unblocked records created by other users | Yes | Yes | Yes | Yes |
| Edit unblocked records created by other users | Yes | Yes | No | No |
| Read internal notes of records created by other users | Yes | Yes | Yes | No |
| Edit internal notes of records created by other users | Yes | Yes | No | No |
| Read/Edit records created by themself | Yes | Yes | Yes | No |
| Read/Edit internal notes of records created by themself | Yes | Yes | Yes | No |
| Unblock/verify records created by other users | Yes | Yes | No | No |
| Unblock/verify records created by themself | Yes | Yes | Yes | No |
| Change passwort | Yes | Yes | Yes | Yes |
| Define user settings | Yes | Yes | Yes | Yes |
General Settings
Members of groups "Administrator" and "DNA Bank Management" define the following general settings:
- Customer requests:
| Feature | Remarks |
|---|---|
| Price and currency of aliquots | |
| Standard aliquot volume for shipping | These settings will be displayed when entering new DNA data and requests, but changes can be made for individual DNA samples if needed. |
- Input & search:
| Feature | Remarks |
|---|---|
| Prefix DNA extraction number | Please note, that you might add a space character after prefix if needed! |
| Backup aliquot made | One of the standards of the DNA Bank Network partners is to make sure there is a copy of the samples. This can be the stock aliquot stored in a different freezer, ideally it should be a backup aliquot stored in a different institution. Please select this option only if you store a backup aliquot. |
- General - Please note that you should define these specific settings during First steps
| Feature | Remarks |
|---|---|
| Logo path | You can add your own logo to be displayed at top right corner. Please enter image path from root, e.g. for YOUR_DNA_MODULE_FOLDER/images/logo.png type "images/logo.png" |
| SMTP path and port | of your email server, please ask your administrator for help |
| Administrator email | Enter email of local administrator that works as sender of any information or error reporting emails related to the DNA Module. |
User defined Settings
All users can define the following settings:
- Search for DNA samples:
- Records per page (hitlist)
- Sorting
- Search for specimens (Specimen Tool):
- Records per page (hitlist)
- Sorting
Change Password
Every user can change his/her password after first login. When creating a new user, a password will be generated automatically and will be send via email to the new user. The first user will be created during First steps.
Wrapper Configuration
The data architecture of the DNA Bank Network is based on the GBIF infrastructure. The basic principle of GBIF as well as of the DNA Bank Network is to record all data sets only once. Stored at only one place they can be used as a linked reference for different applications.
Since many institutions joined GBIF applying different database structures each, the installation of wrappers has become a standard to combine different sources and integrate data easily into networks. There are three main wrapper softwares available BioCASE, DiGIR and TAPIR. All of them use an xml schema for data transfer: BioCASE - ABCD, DiGIR and TAPIR - DarwinCore (DwC).
Metadata for DNA data
Wrapper url for DNA data
Metadata for Specimen Tool
Wrapper url for Specimen Tool
http://www.dnabank-network.org Webpage of the DNA Bank Network
http://www.gbif.org Webpage of the Global Biodiversity Information Facility (GBIF)
http://www.biocase.org Webpage of the Biological Collection Access Servide (BioCASe)
http://www.biocase.org/products/provider_software/index.shtml Download BioCASe Provider Software
http://wiki.bgbm.org/bps/index.php/Main_Page BioCASe Provider Software - Wiki, Installation guide
http://www.bgbm.org/tdwg/codata/schema/ Access to Biological Collection Data (ABCD)
http://digir.net/prov/prov_manual.html Distributed Generic Information System (DiGIR)
http://wiki.tdwg.org/TAPIR/ TDWG Access Protocol for Information Retrieval (TAPIR)
http://wiki.tdwg.org/twiki/bin/view/DarwinCore/WebHome DarwinCore
