Creating a self signed certificate - how do you set the 'storepass'

Hi, I'm trying to use the ADT to create an AIR 2.7 file, but it's the first time i've used the command line tool to build one and am having problems understanding the signing process.
I can generate a cert.p12 keystore file from within the flash IDE, and this asks for a password for the file (-storepass)
I can also use ADT to create a self-signed certificate from the command line, here you can specify the -keystore (cert location) and -keypass (password for the key in the store)
I cannot find a way of generating a self-signed certificate where you can specify both passwords though, one for the store (-storepass) and one for the key (-keypass).
This is a problem because when i go to package my AIR file using ADT it needs both passwords -storepass and -keypass before it can publish it.
Does anyone know how to generate a self-signed .p12 certificate and have control over both the keys...?
I have spent hours playing and searching now so may have the wrong end of the stick, could do with some help getting past this issue.
Thanks
Sean

There is only one password is required to package for ipa as far I know
Sample command:
C:\AdobeAIRSDK\bin\adt.bat -package -target ipa-test -storetype pkcs12 -keystore [KEYFILE].p12 -storepass [KEY PASSWORD] -provisioning-profile [MOBILE PROVISION FILE].mobileprovision [IPA NAME].ipa [XML FILE NAME].xml [SWF FILE NAME].swf Icon_29.png Icon_48.png Icon_57.png Icon_72.png Icon_512.png Default-Landscape.png Default-Portrait.png Default-PortraitUpsideDown.png Default-PortraitLandscapeLeft.png Default-PortraitLandscapeRight.png

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    stefan hi,
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    cem.
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    To generate the keystore file, run the keytool utility as follows, replacing <keystore_filename> with the name of your keystore file, for example, server.keystore. If you are using the Tomcat server, the file must either be named .keystore and located in the home directory of the machine on which Tomcat is running, or you will need to tell Tomcat where the kestore file is by adding a keystoreFile attribute to the <Factory> element in the Tomcat configuration file or by specifying the location of the file on the Connector (8443) node of admintool.
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    Organizational unit--Enter the appropriate value, for example, Java Web Services.
    Organization--Enter the appropriate value, for example, Sun Microsystems.
    City or locality--Enter the appropriate value, for example, Santa Clara.
    State or province--Enter the unabbreviated name, for example, CA.
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