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1
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2 Galaxy wrapper for the Seal toolkit
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3 ====================================
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4
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5 These are the Galaxy wrappers for the Seal toolkit for Hadoop-based processing
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6 of sequencing data (http://biodoop-seal.sf.net).
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7
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8
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9 Installation
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10 -------------------
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11
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12 You can install the Seal-Galaxy wrappers through the Galaxy toolshed or like
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13 any other Galaxy tool. The installation process will try to fetch and build
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14 Seal and some of its dependencies. However, you'll need to make sure that
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15 the build process can find any required headers, libraries and executables,
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16 such as:
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17
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18 * javac
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19 * protobuf
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20 * maven
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21 * ant
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22 * zlib
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23 * git
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24 * hadoop
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25
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26 For details on Seal's installation process refer directly to [its
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27 documentation](http://biodoop-seal.sourceforge.net/installation.html).
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28
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29 Hadoop-Galaxy integration
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30 ----------------------------
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31
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32 These wrappers use the [Hadoop-Galaxy](https://github.com/crs4/hadoop-galaxy)
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33 tool to implement the integration between Hadoop and Galaxy. You should have a
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34 look at its documentation.
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35
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36 An important issue
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37 -----------------------
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38
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39 An implication of the integration provided by Hadoop-Galaxy is that Galaxy
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40 knows nothing about your actual data. Because of this, removing the Galaxy
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41 datasets does not delete the files produced by your Hadoop runs, potentially
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42 resulting in the waste of a lot of space. Also, be careful with situations
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43 where you may end up with multiple pathsets pointing to the same data, or where
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44 they point to data that you want to access from Hadoop but would not want to
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45 delete (e.g., your run directories).
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46
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47 Have a look at the Hadoop-Galaxy README for more details.
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48
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49
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50 Authors
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51 -------------
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52
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53 Luca Pireddu <pireddu@crs4.it>
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54
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55
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56 Support
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57 -------------
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58
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59 No support is provided.
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60
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61
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62
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63 License
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64 --------------
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65
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66 This code is release under the GPLv3.
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67
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68
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69
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70 Copyright
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71 --------------
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72
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73 Copyright CRS4, 2011-2014.
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