/[clarity]/clarity-package.lisp
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Contents of /clarity-package.lisp

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Revision 1 - (show annotations)
Wed Aug 16 20:18:39 2006 UTC (7 years, 8 months ago) by skleinberg
File size: 2766 byte(s)
Initial import
1 ;;; -*- Mode: Lisp -*-
2
3 #|CLARITY: Common Lisp Data Alignment Repository
4 Copyright (c) 2006 Samantha Kleinberg
5 All rights reserved.
6
7 This library is free software; you can redistribute it and/or modify it under the terms of the GNU
8 Lesser General Public License as published by the Free Software Foundation; either version 2.1 of the
9 License, or (at your option) any later version.
10
11 This library is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even
12 the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU Lesser
13 General Public License for more details.
14
15 You should have received a copy of the GNU Lesser General Public License along with this library;
16 if not, write to the Free Software Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
17
18 contact: Samantha AT Bioinformatics DOT nyu DOT edu
19 715 Broadway, 10th floor
20 New York, NY 10003|#
21
22 (defpackage "CLARITY" (:use "CL")
23 (:export
24 "ALIGN-CHARTS"
25 "SCORE"
26 "SCORE-PAIR"
27 "ALIGN-TO-CONSENSUS"
28 "SCORE-PAIR-CONSENSUS"
29 "STRING-ALIGNMENT"
30 "GET-ROOT"
31
32 "TREE-INSERT"
33 "TREE-INSERT-RECURSIVE"
34 "INSERT-NODE"
35 "BUILD-CONSENSUS"
36 "BUILD-INTERNAL-CONSENSUS"
37 "STORE-CONSENSUS-SEQUENCE"
38 "GET-CONSENSUS-TERMS"
39 "GET-DATA-TERMS")
40 (:export
41 "CLARITY-HANDLE"
42 "CLARITY-HANDLE-P"
43 "*CURRENT-CLARITY-HANDLE*"
44 "MAKE-CLARITY-HANDLE"
45 "DISCONNECT-CLARITY-DBS"
46 "CONNECT"
47 "NUMBER-TO-STRING"
48 "INSERT"
49 "INSERT-WITH-PROBES"
50 "GANTTIFY"
51 "GANTTIFY-WITH-PROBES"
52 "STORE-GANTT-CHARTS"
53 "STORE-GANTT-CHART"
54 "STORE-NUMERICAL-DATA"
55 "STORE-NUMERICAL-AND-PROBE-DATA"
56 "FLATTEN"
57 "LASTID"
58 "FILE-LINES"
59 "GET-CHILDREN"
60 "GET-NODE-TERMS"
61 "GET-ALL-DATA")
62
63 (:export
64 "READ-STRING-WHILE"
65 "DECIMAL-READER"
66 "PARSE-DECIMAL"
67 "USE-DECIMAL")
68
69 (:export
70 "INSERT-FILE-POPUP"
71 "GET-FILENAME"
72 "DATABASE-SWITCH-CALLBACK"
73 "PRINT-PARTIAL-FILENAME"
74 )
75 (:export
76 "START-CLARITY-GUI"
77 "START-SETUP-INTERFACE"
78 )
79
80 (:export
81 "*CLARITY-DB-NAME*"
82 "*CLARITY-DB-USER*"
83 "*CLARITY-DB-PASSWORD*"
84 )
85
86 (:export
87 "INSERT-FILE-POPUP"
88 "INSERT-DATA-INTERFACE"
89 "GET-FILENAME"
90 "GET-PHYLOGENY-ROOT"
91 "GET-PHYLOGENY-CHILDREN"
92 "DATABASE-SWITCH-CALLBACK"
93 "PRINT-PARTIAL-FILENAME"
94 )
95 (:export
96 "START-CLARITY-GUI"
97 "START-CLARITY-INTERFACE"
98 "START-SETUP-INTERFACE"
99 "START-WINDOWS-DATA-SOURCE-SETUP"
100 "START-MACOSX-DATA-SOURCE-SETUP"
101 "CLARITY-DATABASE-SETUP-INTERFACE"
102 )
103 (:export
104 "PHYLOGENY-ITEM"
105 "PHYLOGENY-TERM"
106 "PHYLOGENY-WINDOW"
107 )
108 )
109
110
111
112
113 ;;; end of file -- clarity-package.lisp --

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