Mercurial > repos > lain > xseeker

comparison resources/XSeeker/config/config.yml @ 0:15c9fbefeaf1 draft

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" master branch Updating"
author lain
date Tue, 01 Feb 2022 14:19:30 +0000
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-1:000000000000 0:15c9fbefeaf1
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