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The Config menu

The 'Config'-menu allows the setting of the standard parameters for T-ACE. Those parameters are saved in the T-ACE directory under: /conf/T-ACE.conf
All changes to the configuration made through options of the 'Config'-menu will be written automatically to this file.
It is also possible to save and load a specific configuration to/from an additional file. This can be done in the 'File'-menu, with the options 'Save config' and 'Load config'.

Change user password
Database browser
Database info
Database connection
Blast parameters
Blast results
InterProScan results
Primer3
Refresh configuration
Repeats
Save configuration
Set BrowserPath
Set HomeFolder
Set ProteinTranslationTable
Tabs

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Change user password

This function allows the current user to change the login password.

Database connection

Here the IP-address and port to the postgresql database can be set. Also the name of the parent database, which was created with the 'T-ACE_DB_Manager.tcl', has to be set, otherwise the connection will not be possible.
The user name is not necessary, but it will appear as login when starting T-ACE.

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After setting the 'Database connection' the current connection will be closed and a new 'Login'-window will appear.

Blast parameters

Here you set your standard parameters for the 'Blast'-tab. You can choose to blast with a blast server, by setting an URL, or locally. If you choose the 'Local blast'-option you can only blast against blast-databases which are in the /blast_dbs folder of the T-ACE directory. For the local blast NCBI-blast+ has to be installed.

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Set BrowserPath

To set the 'BrowserPath' select the executable of your favored browser. This is important, because some of the tables in T-ACE contain columns with link buttons.
You can find a list of all links in the T-ACE directory under: /conf/links_tace.conf
There you can change existing links or add new ones.

Set HomeFolder

The 'HomeFolder' is standard folder for opening and saving files.

Set ProteinTranslationTable

Sets the path to file with information about protein translation codon usage.
Some such files can be found in the T-ACE directory under: /gcodes/

Blast results

This window sets the standard for showing or hiding columns of the 'Blast results'-tab. Only the columns selected in this window will be shown in the table of 'Blast results'-tab, after starting T-ACE.

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Database browser

The checkbuttons in the left half of the window set the standard for showing or hiding columns of the 'Database browser'-tab. Only the columns selected in this window will be shown in the table of 'Database browser'-tab, after starting T-ACE.
The checkbuttons in the right half set the standard order for listing the entries of the 'Database browser'-table.
The 'Number of displayed rows'-entrybox sets exactly that, the number of displayed rows in the 'Database browser'-table.

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Database info

The checkbuttons set the standard for showing or hiding columns of the 'Database info'-tab. Only the columns selected in this window will be shown in the table of 'Database info'-tab, after starting T-ACE.

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InterProScan results

The checkbuttons in the left half of the window set the standard for showing or hiding columns of the 'InterProScan results'-tab. Only the columns selected in this window will be shown in the table of 'InterProScan results'-tab, after starting T-ACE.
The checkbuttons in the right half set the standard for the listing of the different types of hits, only the hits of selected features will be displayed in the 'InterProScan results'-table.

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Primer3

The checkbuttons set the standard for showing or hiding columns of the 'Primer'-tab. Only the columns selected in this window will be shown in the table of 'Primer'-tab, after starting T-ACE.

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Repeats

The checkbuttons set the standard for showing or hiding columns of the 'Repeats'-tab. Only the columns selected in this window will be shown in the table of 'Repeats'-tab, after starting T-ACE.

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Tabs

The checkbuttons set the standard for showing or hiding the different tabs of T-ACE. Only the tabs selected in this window will be opened after starting T-ACE.

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Save Configuration

Saves the current configuration of T-ACE to the 'T-ACE.conf'.

Refresh Configuration

Refreshes the current configuration of T-ACE, by loading the 'T-ACE.conf'.


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