comparison tool_dependencies.xml @ 0:75d83e0939c5 draft default tip

planemo upload commit 0366addb646f1ddea484915abdeda939d7d49bd5
author nml
date Mon, 24 Oct 2016 13:14:45 -0400
parents
children
comparison
equal deleted inserted replaced
-1:000000000000 0:75d83e0939c5
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>