Mercurial > repos > nml > package_stringmlst_2_1
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date | Mon, 24 Oct 2016 13:14:45 -0400 |
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1 <?xml version="1.0"?> |
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2 <tool_dependency> |
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3 <package name="stringmlst" version="2.1"> |
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4 <install version="1.0"> |
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5 <actions> |
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6 <action type="download_by_url" sha256sum="164f1ea5f486036dbb77481d0cc560315f40ce7aecffbb0f28521431be188de0">https://github.com/anujg1991/stringMLST/archive/v0.2.1.tar.gz</action> |
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7 <action type="move_file"> |
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8 <source>stringMLST.py</source> |
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9 <destination>$INSTALL_DIR</destination> |
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10 </action> |
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11 <action type="set_environment"> |
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12 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/</environment_variable> |
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13 </action> |
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14 <action type="setup_virtualenv">biopython==1.68</action> |
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15 </actions> |
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16 </install> |
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17 <readme> |
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18 |
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19 stringMLST |
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20 |
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21 Fast k-mer based tool for multi locus sequence typing (MLST) stringMLST is a tool for detecting the MLST of an isolate directly from the genome sequencing reads. stringMLST predicts the ST of an isolate in a completely assembly and alignment free manner. The tool is designed in a light-weight, platform-independent fashion with minimum dependencies. |
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22 |
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23 Reference http://jordan.biology.gatech.edu/page/software/stringmlst/ |
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24 |
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25 Abstract http://bioinformatics.oxfordjournals.org/content/early/2016/09/06/bioinformatics.btw586.short?rss=1 |
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26 |
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27 Application Note http://bioinformatics.oxfordjournals.org/content/early/2016/09/06/bioinformatics.btw586.full.pdf+html |
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28 |
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29 |
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30 Manual http://jordan.biology.gatech.edu/page/software/stringmlst/stringMLST-useageDocumentation.pdf |
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31 |
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32 Public repository https://github.com/anujg1991/stringMLST |
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33 |
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34 |
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35 |
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36 License listed below: |
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37 |
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38 LICENSE TERMS FOR stringMLST |
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39 |
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40 1. INTENT/PURPOSE: |
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41 |
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42 stringMLST is free for academic users and requires permission before any commercial use for any version of this code/algorithm. |
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43 If you are a commercial user, please contact king.jordan@biology.gatech.edu for permissions. |
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44 |
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45 2. LICENSEE: |
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46 |
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47 Any person or organization who receives the software with a copy of this license. |
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48 |
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49 3. INTELLECTUAL PROPERTY LICENSED: |
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50 |
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51 The rights to use, copy, modify, and compile the software, |
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52 subject to the restrictions described in the present document. |
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53 |
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54 5. SCOPE OF THE LICENSE |
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55 |
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56 * NON-COMMERCIAL license for research and evaluation purposes ONLY. |
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57 |
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58 * NO right to commercialize the software, or any derivative work, |
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59 without separate agreement with the copyright owners. |
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60 |
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61 6. MODIFICATION |
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62 |
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63 * License permits licensee to modify the software for their |
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64 research and evaluation purposes. |
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65 |
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66 7. REDISTRIBUTION |
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67 |
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68 * License permits licensee to redistribute verbatim copies |
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69 of the software, accompanied with a copy of this license. |
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70 |
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71 * License does not permit licensee to redistribute |
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72 modified versions of the software. |
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73 |
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74 * License does not permit licensee to commercialize the software |
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75 or any derivative work of the software. |
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76 |
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77 8. FEE/ROYALTY |
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78 |
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79 * Licensee pays no royalty for non-commercial license |
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80 |
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81 * Licensee and any third parties must enter a new agreement |
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82 for any use beyond scope of license. |
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83 |
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84 9. NO WARRANTY |
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85 |
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86 The software is provided "as is" without warranty of any kind, |
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87 either expressed or implied, including, but not limited to, the implied |
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88 warranties of merchantability and fitness for a particular purpose. |
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89 The entire risk as to the quality and performance of |
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90 the program is with the Licensee. |
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91 |
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92 10. NO LIABILITY |
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93 |
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94 In no event unless required by applicable law or agreed to in writing |
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95 will any copyright owner be liable to Licensee for damages, including any |
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96 general, special, incidental or consequential damages arising out of the |
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97 use or inability to use the program (including but not limited to loss of |
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98 data or data being rendered inaccurate or losses sustained by Licensee |
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99 or third parties or a failure of the program to operate with other programs), |
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100 even if such holder has been advised of the possibility of such damages. |
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101 |
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102 |
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103 |
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104 </readme> |
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105 </package> |
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106 </tool_dependency> |