| [2] | 1 | Requirements:
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| 2 | =============
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| 3 |
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| 4 | 1. PIL (aka python-imaging in most unix systems).
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| 5 |
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| 6 | 2. python development files (it could be python-dev in unix systems).
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| 7 |
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| 8 | 3. gcc and usual tools for compiling and installing.
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| 9 |
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| [75] | 10 | 4. BioPerl (optional) see BIOPERL.txt
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| [2] | 11 |
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| [91] | 12 | 5. postgres and/or mysql development files (optional) for plone4bio.biosql support.
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| [75] | 13 |
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| [2] | 14 | Installing a BioPlone site:
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| 15 | ===========================
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| 16 |
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| [75] | 17 | 1. Make a symbolic link buildout.cfg to select the profile you want to
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| 18 | use; production, staging or development. For example:
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| 19 |
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| 20 | $ rm buildout.cfg
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| 21 | $ ln -s demo.cfg buildout.cfg
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| 22 |
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| 23 | 2. Run bootstrap.py with the python interpreter you want to use. This
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| [2] | 24 | will install Buildout.
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| 25 |
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| 26 | $ python2.4 bootstrap.py
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| 27 |
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| 28 | or if you've used MacPorts for MacOSX to install your python 2.4:
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| 29 |
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| 30 | $ /opt/local/bin/python2.4 bootstrap.py
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| 31 |
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| 32 | or if you've used Fink for MacOSX to install your python 2.4:
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| 33 |
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| 34 | $ /sw/bin/python2.4 bootstrap.py
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| 35 |
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| 36 | 3. Run buildout
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| 37 |
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| 38 | $ bin/buildout -v
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| 39 |
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| 40 | note: it may take some time ...
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| 41 |
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| 42 | 4. Start up the instance
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| 43 |
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| 44 | $ bin/instance fg
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| 45 |
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| [75] | 46 | 5. If you selected demo.cfg or postgresql.cfg on step 1 then you can stop here and open
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| 47 | your browser at http://localhost:8080/plone4bio you can also login as manager (admin/admin)
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| 48 |
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| 49 | 6. Log into the ZMI at http://localhost:8080/manage as (admin/admin).
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| [2] | 50 | Create a Plone site and then go to the quickinstaller and install the
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| 51 | following products:
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| 52 |
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| [11] | 53 | plone4bio.base
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| 54 | plone4bio.pscoils
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| [2] | 55 |
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| 56 | Now you should be able to add new Sequence types to your Plone site and
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| [11] | 57 | to run the pscoils (http://www.plone4bio.org/pscoils/) code
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| [2] | 58 | against it.
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| 59 |
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| [75] | 60 | 7. To extend the BioPlone site with new predictors, refer to the
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| [11] | 61 | skeleton code in plone4bio.pscoils: you should be able to create a set
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| [2] | 62 | of tools to run against your sequences.
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