Mercurial > repos > nml > package_stringmlst_2_1
comparison tool_dependencies.xml @ 0:75d83e0939c5 draft default tip
planemo upload commit 0366addb646f1ddea484915abdeda939d7d49bd5
author | nml |
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date | Mon, 24 Oct 2016 13:14:45 -0400 |
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1 <?xml version="1.0"?> | |
2 <tool_dependency> | |
3 <package name="stringmlst" version="2.1"> | |
4 <install version="1.0"> | |
5 <actions> | |
6 <action type="download_by_url" sha256sum="164f1ea5f486036dbb77481d0cc560315f40ce7aecffbb0f28521431be188de0">https://github.com/anujg1991/stringMLST/archive/v0.2.1.tar.gz</action> | |
7 <action type="move_file"> | |
8 <source>stringMLST.py</source> | |
9 <destination>$INSTALL_DIR</destination> | |
10 </action> | |
11 <action type="set_environment"> | |
12 <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/</environment_variable> | |
13 </action> | |
14 <action type="setup_virtualenv">biopython==1.68</action> | |
15 </actions> | |
16 </install> | |
17 <readme> | |
18 | |
19 stringMLST | |
20 | |
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. | |
22 | |
23 Reference http://jordan.biology.gatech.edu/page/software/stringmlst/ | |
24 | |
25 Abstract http://bioinformatics.oxfordjournals.org/content/early/2016/09/06/bioinformatics.btw586.short?rss=1 | |
26 | |
27 Application Note http://bioinformatics.oxfordjournals.org/content/early/2016/09/06/bioinformatics.btw586.full.pdf+html | |
28 | |
29 | |
30 Manual http://jordan.biology.gatech.edu/page/software/stringmlst/stringMLST-useageDocumentation.pdf | |
31 | |
32 Public repository https://github.com/anujg1991/stringMLST | |
33 | |
34 | |
35 | |
36 License listed below: | |
37 | |
38 LICENSE TERMS FOR stringMLST | |
39 | |
40 1. INTENT/PURPOSE: | |
41 | |
42 stringMLST is free for academic users and requires permission before any commercial use for any version of this code/algorithm. | |
43 If you are a commercial user, please contact king.jordan@biology.gatech.edu for permissions. | |
44 | |
45 2. LICENSEE: | |
46 | |
47 Any person or organization who receives the software with a copy of this license. | |
48 | |
49 3. INTELLECTUAL PROPERTY LICENSED: | |
50 | |
51 The rights to use, copy, modify, and compile the software, | |
52 subject to the restrictions described in the present document. | |
53 | |
54 5. SCOPE OF THE LICENSE | |
55 | |
56 * NON-COMMERCIAL license for research and evaluation purposes ONLY. | |
57 | |
58 * NO right to commercialize the software, or any derivative work, | |
59 without separate agreement with the copyright owners. | |
60 | |
61 6. MODIFICATION | |
62 | |
63 * License permits licensee to modify the software for their | |
64 research and evaluation purposes. | |
65 | |
66 7. REDISTRIBUTION | |
67 | |
68 * License permits licensee to redistribute verbatim copies | |
69 of the software, accompanied with a copy of this license. | |
70 | |
71 * License does not permit licensee to redistribute | |
72 modified versions of the software. | |
73 | |
74 * License does not permit licensee to commercialize the software | |
75 or any derivative work of the software. | |
76 | |
77 8. FEE/ROYALTY | |
78 | |
79 * Licensee pays no royalty for non-commercial license | |
80 | |
81 * Licensee and any third parties must enter a new agreement | |
82 for any use beyond scope of license. | |
83 | |
84 9. NO WARRANTY | |
85 | |
86 The software is provided "as is" without warranty of any kind, | |
87 either expressed or implied, including, but not limited to, the implied | |
88 warranties of merchantability and fitness for a particular purpose. | |
89 The entire risk as to the quality and performance of | |
90 the program is with the Licensee. | |
91 | |
92 10. NO LIABILITY | |
93 | |
94 In no event unless required by applicable law or agreed to in writing | |
95 will any copyright owner be liable to Licensee for damages, including any | |
96 general, special, incidental or consequential damages arising out of the | |
97 use or inability to use the program (including but not limited to loss of | |
98 data or data being rendered inaccurate or losses sustained by Licensee | |
99 or third parties or a failure of the program to operate with other programs), | |
100 even if such holder has been advised of the possibility of such damages. | |
101 | |
102 | |
103 | |
104 </readme> | |
105 </package> | |
106 </tool_dependency> |