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=GotCloud Debian Packages=
==Installing Debian Packages==
Back to parent: [[GotCloud]]
Back to parent: [[GotCloud]]
where 'M.n' are the normal major-minor version system.
where 'M.n' are the normal major-minor version system.
===Fetch the GotCloud Debian Packages===
<code>
<code>
</code>
</code>
===Install the GotCloud Debian bin Package===
Installation requires one to have <b>root access</b> and uses <b>dpkg</b> which Debian users will recognize.
Installation requires one to have <b>root access</b> and uses <b>dpkg</b> which Debian users will recognize.
===Testing the GotCloud Installation===
We recommend that at least the first time, you install the test packages so you can
We recommend that at least the first time, you install the test packages so you can
# Test umake (5 minutes +/-2 minute)
# Test snp calling (5 minutes +/-2 minute)
'''/usr/local/gotcloud/bin/gotcloud snpcall --test ~/testsnp'''
'''/usr/local/gotcloud/bin/gotcloud snpcall --test ~/testsnp'''
Removing any previous results from: /home/myuser/testsnp/umaketest
Removing any previous results from: /home/myuser/testsnp/umaketest
</code>
</code>
==Creating Your Own Debian Package From the Source==
The process to create your own Debian package from the source files is straight-forward
The process to create your own Debian package from the source files is straight-forward
for Debian users. The source files actually contain source for the executables,
for Debian users. The source files actually contain source for the executables,
the test data and the scripts and configuration files used by the users.
the test data and the scripts and configuration files used by the users.
These steps build two debian package files - one for the test data (test) and one for the
binaries and scripts (bin).
binaries and scripts (bin).
In order to simply the build of two packages, the debian directory contains the control
In order to simplify the building of two packages, the debian directory contains the control files for both packages (bin and test).
files for both packages (bin and test).
This requires that the normal control files (e.g. rules) be named rules.test and rules.bin
This requires that the normal control files (e.g. rules) be named rules.test and rules.bin
and the shell script (makedeb.sh) be aware of this nuance.
and the shell script (makedeb.sh) be aware of this nuance.
the version for GotCloud.
the version for GotCloud.
'''Fetch the Source'''
'''Fetch the Source Including the Test Files'''
<code>
<code>
# The easiest way:
# The easiest way:
wget ftp://share.sph.umich.edu/gotcloud/gotcloud-src_latest.tgz
wget ftp://share.sph.umich.edu/gotcloud/gotcloudWithTest_latest.tgz
# Another way:
# Another way:
ftp> cd gotcloud
ftp> cd gotcloud
250 Directory successfully changed.
250 Directory successfully changed.
ftp> get gotcloud-src_latest.tgz
ftp> get gotcloudWithTest_latest.tgz
ftp> quit
ftp> quit
221 Goodbye.
221 Goodbye.
# Extract the source files
# Extract the source files
cd ~/src # Wherever you want the source files
cd ~/src # Or wherever you want the source files
tar xzf path/gotcloud-src_latest.tgz
tar xzf path/gotcloudWithTest_latest.tgz
</code>
</code>
'''Compile the Source'''
'''Fetch the Source Excluding the Test Files'''
Follow the above logic, but use: gotcloud_latest.tgz
'''Fetch just the Test Files'''
Follow the above logic, but use: gotcloudTest_latest.tgz
===Compile the Source===
<code>
<code>
cd ~/src
cd ~/src # Or wherever you put the source files
cd gotcloud*
cd gotcloud*
cd src
cd src
</code>
</code>
===Create the Debian Package Files===
<code>
<code>
'''cd ~/src'''
'''cd ~/src''' # Or wherever you put the source files
'''cd gotcloud*'''
'''cd gotcloud*'''
