|
0
|
1
|
|
|
2
|
|
|
3 default:
|
|
|
4
|
|
|
5
|
|
|
6 XSeeker_path: "/XSeeker"
|
|
|
7 input_directory: "{{XSeeker_path}}/input/"
|
|
|
8
|
|
|
9
|
|
|
10 galaxy:
|
|
|
11 active: TRUE
|
|
|
12 export_directory: "{{XSeeker_path}}/output/"
|
|
|
13 export_method: "directory"
|
|
|
14
|
|
|
15
|
|
|
16 database:
|
|
|
17 base_data: "{{XSeeker_path}}/data/base.sql"
|
|
|
18 recreate: FALSE
|
|
|
19 models:
|
|
|
20 adduct
|
|
|
21 cluster
|
|
|
22 compound
|
|
|
23 feature
|
|
|
24 instrument
|
|
|
25 instrument_config
|
|
|
26 project
|
|
|
27 sample
|
|
|
28 smol_xcms_set
|
|
|
29 software
|
|
|
30 camera_parameters
|
|
|
31 pairing_parameters
|
|
|
32 peak_picking_parameters
|
|
|
33 alignmenmt_parameters
|
|
|
34 models_definition_path: "{{XSeeker_path}}/config/models.R"
|
|
|
35 connection:
|
|
|
36 connector: "SQLite"
|
|
|
37 dbname: "{{XSeeker_path}}/test.sqlite"
|
|
|
38
|
|
|
39
|
|
|
40 shiny:
|
|
|
41 host: "0.0.0.0"
|
|
|
42 port: 8765
|
|
|
43 show_errors: TRUE
|
|
|
44 appname: "XSeeker"
|
|
|
45 base_ui_path: "{{XSeeker_path}}/R/base_ui.R"
|
|
|
46 added_resources:
|
|
|
47 www: "{{XSeeker_path}}/www/"
|
|
|
48 sbs: "{{XSeeker_path}}/dist/shinyBS/www/"
|
|
|
49
|
|
|
50
|
|
|
51 modules:
|
|
|
52 checksums_file: "{{XSeeker_path}}/.checksums"
|
|
|
53 re_compile_modified: FALSE
|
|
|
54 sources_location: "{{XSeeker_path}}/modules"
|
|
|
55 binaries_location: "{{XSeeker_path}}/bin"
|
|
|
56 binaries:
|
|
|
57 XSeekerRdataManager
|
|
|
58 XSeekerFilePreProcessing
|
|
|
59 XSeekerPreProcessPeakPicking
|
|
|
60 XSeekerPreProcessAlignment
|
|
|
61 XSeekerPreProcessCamera
|
|
|
62 XSeekerKMDPlot
|
|
|
63 XSeekerComputeFormula
|
|
|
64 XSeekerChromatoAndMassSpectrum
|
|
|
65 XSeekerClusterTable
|
|
|
66 XSeekerDatabaseManager
|
|
|
67 XSeekerDatabaseSummary
|
|
|
68 XSeekerHairyPlotter
|
|
|
69 XSeekerGalaxyInterfacR
|
|
|
70
|
|
|
71 sources:
|
|
|
72
|
|
|
73
|
|
|
74 XSeekerRdataManager:
|
|
|
75 autoload: TRUE
|
|
|
76 download_rdata_mzml_from_galaxy: FALSE
|
|
|
77
|
|
|
78
|
|
|
79 production:
|
|
|
80
|
|
|
81 database:
|
|
|
82 recreate: FALSE
|
|
|
83 connection:
|
|
|
84 connector: "SQLite"
|
|
|
85 dbname: "{{XSeeker_path}}/production.sqlite"
|
|
|
86
|
|
|
87 modules:
|
|
|
88 re_compile_modified: FALSE
|
|
|
89
|
|
|
90
|
|
|
91 docker:
|
|
|
92
|
|
|
93 database:
|
|
|
94 recreate: TRUE
|
|
|
95 connection:
|
|
|
96 connector: "SQLite"
|
|
|
97 dbname: "file::memory:"
|
|
|
98
|
|
|
99 modules:
|
|
|
100 re_compile_modified: FALSE
|
